https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/Head https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA http://www.nanopub.org/nschema#hasAssertion https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/assertion https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA http://www.nanopub.org/nschema#hasProvenance https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/provenance https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA http://www.nanopub.org/nschema#hasPublicationInfo https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/pubinfo https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://www.nanopub.org/nschema#Nanopublication https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/assertion https://about.workflowhub.eu http://schema.org/name WorkflowHub https://about.workflowhub.eu http://schema.org/url https://about.workflowhub.eu/ https://about.workflowhub.eu http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Organization https://about.workflowhub.eu/Workflow-RO-Crate http://schema.org/name Workflow RO-Crate Profile https://about.workflowhub.eu/Workflow-RO-Crate http://schema.org/version 0.2.0 https://about.workflowhub.eu/Workflow-RO-Crate http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/CreativeWork https://orcid.org/0000-0003-2388-0744 http://schema.org/name Małgorzata Wolniewicz https://orcid.org/0000-0003-2388-0744 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://xmlns.com/foaf/0.1/Agent https://ror.org/https://doi.org/10.1093/bioinformatics/bts480 http://schema.org/identifier https://doi.org/10.1093/bioinformatics/bts480 https://ror.org/https://doi.org/10.1093/bioinformatics/bts480 http://schema.org/name Snakemake https://ror.org/https://doi.org/10.1093/bioinformatics/bts480 http://schema.org/url https://snakemake.readthedocs.io/ https://ror.org/https://doi.org/10.1093/bioinformatics/bts480 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/ComputerLanguage https://ror.org/https://orcid.org/0000-0003-4771-6113 http://schema.org/identifier https://orcid.org/0000-0003-4771-6113 https://ror.org/https://orcid.org/0000-0003-4771-6113 http://schema.org/name Sagane Joye-Dind https://ror.org/https://orcid.org/0000-0003-4771-6113 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Person https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/#enrichment_service-account-enrichment http://schema.org/name service-account-enrichment https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/#enrichment_service-account-enrichment http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://xmlns.com/foaf/0.1/Agent https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://purl.org/pav/importedBy https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/author https://ror.org/https://orcid.org/0000-0003-4771-6113 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/contentSize 91622645 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/contentUrl https://api.rohub.org/api/ros/7019724e-b5a0-4f7e-a7d6-a1baacac85df/crate/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/dateCreated 2023-09-13 18:24:50.860910+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/dateModified 2024-03-05 12:23:14.184651+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/datePublished 2023-09-13 18:24:50.860910+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/description # ERGA Protein-coding gene annotation workflow. Adapted from the work of Sagane Joye: https://github.com/sdind/genome_annotation_workflow ## Prerequisites The following programs are required to run the workflow and the listed version were tested. It should be noted that older versions of snakemake are not compatible with newer versions of singularity as is noted here: [https://github.com/nextflow-io/nextflow/issues/1659](https://github.com/nextflow-io/nextflow/issues/1659). `conda v 23.7.3` `singularity v 3.7.3` `snakemake v 7.32.3` You will also need to acquire a licence key for Genemark and place this in your home directory with name `~/.gm_key` The key file can be obtained from the following location, where the licence should be read and agreed to: http://topaz.gatech.edu/GeneMark/license_download.cgi ## Workflow The pipeline is based on braker3 and was tested on the following dataset from Drosophila melanogaster: [https://doi.org/10.5281/zenodo.8013373](https://doi.org/10.5281/zenodo.8013373) ### Input data - Reference genome in fasta format - RNAseq data in paired-end zipped fastq format - uniprot fasta sequences in zipped fasta format ### Pipeline steps - **Repeat Model and Mask** Run RepeatModeler using the genome as input, filter any repeats also annotated as protein sequences in the uniprot database and use this filtered libray to mask the genome with RepeatMasker - **Map RNAseq data** Trim any remaining adapter sequences and map the trimmed reads to the input genome - **Run gene prediction software** Use the mapped RNAseq reads and the uniprot sequences to create hints for gene prediction using Braker3 on the masked genome - **Evaluate annotation** Run BUSCO to evaluate the completeness of the annotation produced ### Output data - FastQC reports for input RNAseq data before and after adapter trimming - RepeatMasker report containing quantity of masked sequence and distribution among TE families - Protein-coding gene annotation file in gff3 format - BUSCO summary of annotated sequences ## Setup Your data should be placed in the `data` folder, with the reference genome in the folder `data/ref` and the transcript data in the foler `data/rnaseq`. The config file requires the following to be given: ``` asm: 'absolute path to reference fasta' snakemake_dir_path: 'path to snakemake working directory' name: 'name for project, e.g. mHomSap1' RNA_dir: 'absolute path to rnaseq directory' busco_phylum: 'busco database to use for evaluation e.g. mammalia_odb10' ``` https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/description # ERGA Protein-coding gene annotation workflow. Adapted from the work of Sagane Joye: https://github.com/sdind/genome_annotation_workflow ## Prerequisites The following programs are required to run the workflow and the listed version were tested. It should be noted that older versions of snakemake are not compatible with newer versions of singularity as is noted here: [https://github.com/nextflow-io/nextflow/issues/1659](https://github.com/nextflow-io/nextflow/issues/1659). `conda v 23.7.3` `singularity v 3.7.3` `snakemake v 7.32.3` You will also need to acquire a licence key for Genemark and place this in your home directory with name `~/.gm_key` The key file can be obtained from the following location, where the licence should be read and agreed to: http://topaz.gatech.edu/GeneMark/license_download.cgi ## Workflow The pipeline is based on braker3 and was tested on the following dataset from Drosophila melanogaster: [https://doi.org/10.5281/zenodo.8013373](https://doi.org/10.5281/zenodo.8013373) ### Input data - Reference genome in fasta format - RNAseq data in paired-end zipped fastq format - uniprot fasta sequences in zipped fasta format ### Pipeline steps - **Repeat Model and Mask** Run RepeatModeler using the genome as input, filter any repeats also annotated as protein sequences in the uniprot database and use this filtered libray to mask the genome with RepeatMasker - **Map RNAseq data** Trim any remaining adapter sequences and map the trimmed reads to the input genome - **Run gene prediction software** Use the mapped RNAseq reads and the uniprot sequences to create hints for gene prediction using Braker3 on the masked genome - **Evaluate annotation** Run BUSCO to evaluate the completeness of the annotation produced ### Output data - FastQC reports for input RNAseq data before and after adapter trimming - RepeatMasker report containing quantity of masked sequence and distribution among TE families - Protein-coding gene annotation file in gff3 format - BUSCO summary of annotated sequences ## Setup Your data should be placed in the `data` folder, with the reference genome in the folder `data/ref` and the transcript data in the foler `data/rnaseq`. The config file requires the following to be given: ``` asm: 'absolute path to reference fasta' snakemake_dir_path: 'path to snakemake working directory' name: 'name for project, e.g. mHomSap1' RNA_dir: 'absolute path to rnaseq directory' busco_phylum: 'busco database to use for evaluation e.g. mammalia_odb10' ``` https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/encodingFormat application/ld+json https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/17b98cad-68c7-4991-acb1-b922f0c3d44f https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/28d4cc6a-cc26-4629-865c-951dcec04a63 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/ef0d1b26-8b1c-4a45-9758-52610cb8e3a8 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/identifier https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/isBasedOn https://github.com/ERGA-consortium/pipelines/tree/main/annotation/snakemake https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/mainEntity Snakefile https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/name Research Object Crate for ERGA Protein-coding gene annotation workflow https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://schema.org/url https://workflowhub.eu/workflows/569/ro_crate?version=1 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/ro#ResearchObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/roevo#LiveRO https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Dataset https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ https://www.w3.org/ns/iana/link-relations/relation#cite-as Sagane Joye-Dind. "Research Object Crate for ERGA Protein-coding gene annotation workflow." ROHub. Sep 13 ,2023. https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df. https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/17b98cad-68c7-4991-acb1-b922f0c3d44f http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/17b98cad-68c7-4991-acb1-b922f0c3d44f http://schema.org/name files https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/17b98cad-68c7-4991-acb1-b922f0c3d44f http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Folder https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/17b98cad-68c7-4991-acb1-b922f0c3d44f http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Dataset https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/28d4cc6a-cc26-4629-865c-951dcec04a63 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/28d4cc6a-cc26-4629-865c-951dcec04a63 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/28d4cc6a-cc26-4629-865c-951dcec04a63 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/28d4cc6a-cc26-4629-865c-951dcec04a63 http://schema.org/name rules https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/28d4cc6a-cc26-4629-865c-951dcec04a63 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Folder https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/28d4cc6a-cc26-4629-865c-951dcec04a63 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Dataset https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://schema.org/name envs https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Folder https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/72f47650-7679-4648-bb43-d28fa77665c4 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Dataset https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/ef0d1b26-8b1c-4a45-9758-52610cb8e3a8 http://schema.org/hasPart https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/ef0d1b26-8b1c-4a45-9758-52610cb8e3a8 http://schema.org/name config https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/ef0d1b26-8b1c-4a45-9758-52610cb8e3a8 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Folder https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/folders/ef0d1b26-8b1c-4a45-9758-52610cb8e3a8 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Dataset https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/about https://ror.org/https://doi.org/10.48546/workflowhub.workflow.569.1 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/contentSize 13219 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/contentUrl https://api.rohub.org/api/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/dateCreated 2023-09-13 18:24:52.667262+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/dateModified 2023-09-13 18:25:04.460641+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/encodingFormat text/html https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/name ro-crate-preview.html https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://schema.org/sdDatePublished 2023-09-13 18:24:52.667262+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/CreativeWork https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/043ddb69-1a1c-4eb4-8785-9e3803fa377c http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/contentSize 83 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/contentUrl https://api.rohub.org/api/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/dateCreated 2023-09-13 18:24:52.291405+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/dateModified 2023-09-13 18:24:55.832618+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/name hisat.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://schema.org/sdDatePublished 2023-09-13 18:24:52.291405+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/0cdb95da-31b8-40ad-a2f9-32154e335db2 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://purl.org/dc/terms/conformsTo https://bioschemas.org/profiles/ComputationalWorkflow/1.0-RELEASE/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/author https://workflowhub.eu/people/554 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/contentSize 562 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/contentUrl https://api.rohub.org/api/resources/11f3e069-8d1d-48da-876f-52fd6d255223/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/creator https://workflowhub.eu/people/554 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/dateCreated 2023-09-12 19:29:55+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/dateModified 2023-09-13 18:25:04.032738+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/description # ERGA Protein-coding gene annotation workflow. Adapted from the work of Sagane Joye: https://github.com/sdind/genome_annotation_workflow ## Prerequisites The following programs are required to run the workflow and the listed version were tested. It should be noted that older versions of snakemake are not compatible with newer versions of singularity as is noted here: [https://github.com/nextflow-io/nextflow/issues/1659](https://github.com/nextflow-io/nextflow/issues/1659). `conda v 23.7.3` `singularity v 3.7.3` `snakemake v 7.32.3` You will also need to acquire a licence key for Genemark and place this in your home directory with name `~/.gm_key` The key file can be obtained from the following location, where the licence should be read and agreed to: http://topaz.gatech.edu/GeneMark/license_download.cgi ## Workflow The pipeline is based on braker3 and was tested on the following dataset from Drosophila melanogaster: [https://doi.org/10.5281/zenodo.8013373](https://doi.org/10.5281/zenodo.8013373) ### Input data - Reference genome in fasta format - RNAseq data in paired-end zipped fastq format - uniprot fasta sequences in zipped fasta format ### Pipeline steps - **Repeat Model and Mask** Run RepeatModeler using the genome as input, filter any repeats also annotated as protein sequences in the uniprot database and use this filtered libray to mask the genome with RepeatMasker - **Map RNAseq data** Trim any remaining adapter sequences and map the trimmed reads to the input genome - **Run gene prediction software** Use the mapped RNAseq reads and the uniprot sequences to create hints for gene prediction using Braker3 on the masked genome - **Evaluate annotation** Run BUSCO to evaluate the completeness of the annotation produced ### Output data - FastQC reports for input RNAseq data before and after adapter trimming - RepeatMasker report containing quantity of masked sequence and distribution among TE families - Protein-coding gene annotation file in gff3 format - BUSCO summary of annotated sequences ## Setup Your data should be placed in the `data` folder, with the reference genome in the folder `data/ref` and the transcript data in the foler `data/rnaseq`. The config file requires the following to be given: ``` asm: 'absolute path to reference fasta' snakemake_dir_path: 'path to snakemake working directory' name: 'name for project, e.g. mHomSap1' RNA_dir: 'absolute path to rnaseq directory' busco_phylum: 'busco database to use for evaluation e.g. mammalia_odb10' ``` https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/keywords Annotation, Genomics, Transcriptomics https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/name ERGA Protein-coding gene annotation workflow https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/producer https://workflowhub.eu/projects/191 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/programmingLanguage #snakemake https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/sdDatePublished 2023-09-12 19:29:55+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/sdPublisher https://about.workflowhub.eu/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/url https://github.com/ERGA-consortium/pipelines/tree/main/annotation/snakemake/Snakefile https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://schema.org/version 1 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/SoftwareSourceCode https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/11f3e069-8d1d-48da-876f-52fd6d255223 http://www.w3.org/1999/02/22-rdf-syntax-ns#type https://bioschemas.org/ComputationalWorkflow https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/contentSize 84 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/contentUrl https://api.rohub.org/api/resources/1dd2de01-f16f-4704-853a-116e2de3ff65/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/dateCreated 2023-09-13 18:24:52.289390+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/dateModified 2023-09-13 18:24:55.014153+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/name fastqc.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://schema.org/sdDatePublished 2023-09-13 18:24:52.289390+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/1dd2de01-f16f-4704-853a-116e2de3ff65 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/contentSize 76 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/contentUrl https://api.rohub.org/api/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/dateCreated 2023-09-13 18:24:52.292399+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/dateModified 2023-09-13 18:24:56.003168+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/name protexcluder.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://schema.org/sdDatePublished 2023-09-13 18:24:52.292399+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/21e37e3d-1372-4acd-9ce7-b1a005e9a41a http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/contentSize 91586491 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/contentUrl https://api.rohub.org/api/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/dateCreated 2023-09-13 18:24:52.663696+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/dateModified 2023-09-13 18:24:57.288292+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/name uniprot_sprot.fasta.gz https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://schema.org/sdDatePublished 2023-09-13 18:24:52.663696+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/2dd40f39-d265-4afe-ab50-5238e7bd6b16 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/contentSize 7902 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/contentUrl https://api.rohub.org/api/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/dateCreated 2023-09-13 18:24:52.665086+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/dateModified 2023-09-13 18:25:00.419280+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/name 1_MaskRepeat.smk https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://schema.org/sdDatePublished 2023-09-13 18:24:52.665086+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/52497c90-bae5-4fbd-aca5-b5175ff7a4fa http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/contentSize 85 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/contentUrl https://api.rohub.org/api/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/dateCreated 2023-09-13 18:24:52.294349+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/dateModified 2023-09-13 18:24:56.445276+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/name tePSI.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://schema.org/sdDatePublished 2023-09-13 18:24:52.294349+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/5e018f3a-bc34-48db-b72e-f85214a13a9d http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/contentSize 86 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/contentUrl https://api.rohub.org/api/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/dateCreated 2023-09-13 18:24:52.295311+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/dateModified 2023-09-13 18:24:56.846580+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/name trimm.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://schema.org/sdDatePublished 2023-09-13 18:24:52.295311+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6420e76a-1e0e-42a0-9b9e-e355de2a88a5 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/contentSize 70 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/contentUrl https://api.rohub.org/api/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/dateCreated 2023-09-13 18:24:52.288353+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/dateModified 2023-09-13 18:24:54.812023+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/name blast.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://schema.org/sdDatePublished 2023-09-13 18:24:52.288353+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/64cb8be0-e907-41a0-8f6b-dbf642fe4372 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/contentSize 0 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/contentUrl https://api.rohub.org/api/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/dateCreated 2023-09-13 18:24:52.287342+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/dateModified 2023-09-13 18:24:54.625563+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/name agat.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://schema.org/sdDatePublished 2023-09-13 18:24:52.287342+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/69f9d60c-925c-4b44-9b87-fc35c96eed2f http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/contentSize 84 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/contentUrl https://api.rohub.org/api/resources/6aadc530-3b55-44e0-8c8d-8762952df493/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/dateCreated 2023-09-13 18:24:52.293394+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/dateModified 2023-09-13 18:24:56.211113+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/name samtools.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://schema.org/sdDatePublished 2023-09-13 18:24:52.293394+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/6aadc530-3b55-44e0-8c8d-8762952df493 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/contentSize 62 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/contentUrl https://api.rohub.org/api/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/dateCreated 2023-09-13 18:24:52.290394+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/dateModified 2023-09-13 18:24:55.550150+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/name gaas.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://schema.org/sdDatePublished 2023-09-13 18:24:52.290394+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/70cec592-1fbe-4b53-a8ef-8dd3522246d6 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/contentSize 5859 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/contentUrl https://api.rohub.org/api/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/dateCreated 2023-09-13 18:24:52.665788+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/dateModified 2023-09-13 18:25:00.644693+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/name 2_alignRNA.smk https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://schema.org/sdDatePublished 2023-09-13 18:24:52.665788+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/7d430516-d8cb-4bc0-a4d9-e103a63e3478 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/contentSize 2248 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/contentUrl https://api.rohub.org/api/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/dateCreated 2023-09-13 18:24:52.282962+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/dateModified 2023-09-13 18:24:53.979999+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/encodingFormat text/markdown https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/name README.md https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://schema.org/sdDatePublished 2023-09-13 18:24:52.282962+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/89e1f03d-e2e9-46f1-8386-8cdeff35386c http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/contentSize 2012 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/contentUrl https://api.rohub.org/api/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/dateCreated 2023-09-13 18:24:52.666452+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/dateModified 2023-09-13 18:25:00.849293+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/name 3_braker.smk https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://schema.org/sdDatePublished 2023-09-13 18:24:52.666452+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/b2864dbb-5ce6-4ad9-8dcb-27a0325baeb1 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/author https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/contentSize 327 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/contentUrl https://api.rohub.org/api/resources/d6d97bc9-1631-4347-920b-dec30f6aebea/download/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/creator https://orcid.org/0000-0003-2388-0744 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/dateCreated 2023-09-13 18:24:52.285895+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/dateModified 2023-09-13 18:24:54.412314+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/license https://choosealicense.com/no-permission/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/name config.yaml https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://schema.org/sdDatePublished 2023-09-13 18:24:52.285895+00:00 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/wf4ever/wf4ever#Resource https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/resources/d6d97bc9-1631-4347-920b-dec30f6aebea http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/MediaObject https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ro-crate-metadata.json http://purl.org/dc/terms/conformsTo https://w3id.org/ro/crate/1.1 https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ro-crate-metadata.json http://schema.org/about https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ro-crate-metadata.json http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/CreativeWork https://workflowhub.eu/people/554 http://schema.org/name Sagane Joye-Dind https://workflowhub.eu/people/554 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Person https://workflowhub.eu/projects/191 http://schema.org/name ERGA Annotation https://workflowhub.eu/projects/191 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Organization https://workflowhub.eu/projects/191 http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://schema.org/Project https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/provenance https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/assertion http://www.w3.org/ns/prov#wasDerivedFrom https://api.rohub.org/api/ros/7019724e-b5a0-4f7e-a7d6-a1baacac85df/crate/download/ro-crate-metadata.json https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/pubinfo https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA http://purl.org/dc/terms/created 2025-11-11T16:06:28.382+01:00 https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA http://purl.org/nanopub/x/introduces https://w3id.org/ro-id/7019724e-b5a0-4f7e-a7d6-a1baacac85df/ https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA http://www.w3.org/1999/02/22-rdf-syntax-ns#type http://purl.org/nanopub/x/RoCrateNanopub https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA http://www.w3.org/2000/01/rdf-schema#label Research Object Crate for ERGA Protein-coding gene annotation workflow https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/sig http://purl.org/nanopub/x/hasAlgorithm RSA https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/sig http://purl.org/nanopub/x/hasPublicKey MIIBIjANBgkqhkiG9w0BAQEFAAOCAQ8AMIIBCgKCAQEA4pPaESKwmC6l37P86K6TNLq6yeQtc7m9CvcqauLs/1FC0viHvQnFBgxj0a+loPDv/Egwe6OqFpa0iW9Ypnyz9YPoh+pxbRXonbuMOb+8Ry9hXZ+TEKfWjhjVDGEaClwfRwglh2HI/xfV4CD9AgvDOEoZQiyta8a90PYwJ3G6e70oCHTn61+OWTkI9KRYHOYgg3btdy2Z7q/30PTFawb2ZT5aIfIJYobUYv2a7yhtcqWCHZeKv0bxGnRjTFNx1rscBMlLJSzvRtpQc1cCRVEPFZHo1adaXCI9tGvn4cxeNQ96y8dxkN1XhpaJairde+23MDzf42Oe97KG2HYzKiyVnQIDAQAB https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/sig http://purl.org/nanopub/x/hasSignature XaOMVbys4bSXed9t1NnW/3sNMTmSLOrSVEWnD8787WIpMB2mNwhumGbd1Zmp6USYCEMc3t22P3tMS25dtVO9/GM9KZJ5VT0PF7fg+b9o/fQaJyJVRytnoS4rzs2+D60QevqFtLF0XDQdKFW4PhFVuRoKIPL+eqmBvtZ+8Yrhwdb81KV2oWREkT7uydxEddU0jpaty01iUR680KlCcsIA5aiHJCifyOE2P5W4cGfiRFXclYylO0V+9LfRfUduS4cJyfu2zWQPcxx8VXlyOHXNs+rzCEaEGFm9EqgHLakyhxP/TEbBAMFFK+3uhR9a4VxR4PZsKQPMv0ejTJTtb6AoTA== https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/sig http://purl.org/nanopub/x/hasSignatureTarget https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA https://w3id.org/np/RAuZdwi5v34TP1MWsdSxlqcFFrNgAsnNfPkF_bF-PjuGA/sig http://purl.org/nanopub/x/signedBy https://w3id.org/kpxl/gen/terms/RoCrateBot