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feature: add support for eggnog-mapper#129

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franciscozorrilla wants to merge 3 commits intomasterfrom
franciscozorrilla-eggnog-mapper-patch
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feature: add support for eggnog-mapper#129
franciscozorrilla wants to merge 3 commits intomasterfrom
franciscozorrilla-eggnog-mapper-patch

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@franciscozorrilla franciscozorrilla commented Jun 9, 2023

🥚 eggNOG-mapper for better functional annotation 🍸

🐍 Snakefile tasks

  • create eggnog-mapper rule for processing ORF-annotated protein fasta files of genomes
  • create helper/supplementary rule to deal with large number of genomes (e.g. per sample submission of jobs)

🔨 Additional modifications for full integration/support

  • metaGEM.sh: add options + support for new tasks
  • config.yaml: add params used in new tasks
  • config readme file: eggnog-mapper could go in main metaGEM env
  • conda recipe: update
  • main readme file: text and eventually figure

create Snakefile rule to annotate genomes with eggnog-mapper
@franciscozorrilla franciscozorrilla self-assigned this Jun 9, 2023
@franciscozorrilla franciscozorrilla added enhancement New feature or request method Novel or alternative conceptual method labels Jun 9, 2023
add line to create dummy output folder, still need to replace hardcoded cores number with new param, same with eggnog env
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