Add Entrez mapping - Githubissues

Plant-Food-Research-Open / genepal

A Nextflow pipeline for genome and pan-genome annotation

https://github.com/Plant-Food-Research-Open/genepal/blob/main/docs/README.md

MIT License

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Add Entrez mapping #80

Open CeciliaDeng opened 1 month ago

CeciliaDeng commented 1 month ago

Description of feature

The entrez IDs are super useful in RNASeq/enrichment analyses and would save us a lot of work if its done in the annotation step. This feature could help link our pipelines (genepal, rnaseq, fairGenomes) into a nice system. Can we have this feature added please?

GallVp commented 1 month ago

A couple of questions,

What is a Entrez ID? Can you please provide an example?
Is this feature not already covered by eggnog mapper? Can you please look at the results/*/*.emapper.annotations and results/*/*.emapper.seed_orthologs, etc. for reference?

CeciliaDeng commented 1 week ago

See Entrze Uniprot IDs are useful too