Groovy Map containing sample information
e.g. [ id:'sample1' ]
gene_list{:bash}
:file
A tsv/csv file that contains a list of gene ids in one of the columns. By default, the column name should be “gene_id”, but this can be changed by using “—columname gene_id” in ext.args.
*.{csv,tsv}
Output
name:type
description
pattern
gmt{:bash}
meta{:bash}
:map
Groovy Map containing sample information
e.g. [ id:'sample1' ]
*.gmt{:bash}
:file
Each row contains the GO id, a description, and a list of gene ids.
*.gmt
tsv{:bash}
meta{:bash}
:map
Groovy Map containing sample information
e.g. [ id:'sample1' ]
*.tsv{:bash}
:file
(optional) A tsv file with the following columns:
query, mygene_id, go_id, go_term, go_evidence, go_category, symbol, name, taxid
*.tsv
versions{:bash}
versions.yml{:bash}
:file
File containing software versions
versions.yml
Tools
mygene
Apache-2.0
A python wrapper to query/retrieve gene annotation data from Mygene.info.
