KEGG description for KO ids
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I have run the picrust2 pipeline for both EC nos and KO nos. I completed the pathway prediction using pathway_pipeline.py -i pred_metagenome_unstrat.tsv.gz -o KEGG_pathways_out --no_regroup --map /home/******/picrust2-2.4.2/picrust2/default_files/pathway_mapfiles/KEGG_pathways_to_KO.tsv . I wanted to add description to the KO nos with reference to KEGG. When I check picrust2/default_files/pathway_mapfiles/ there are two files one "KEGG_pathways_to_KO.tsv"
and the other "KEGG_modules_to_KO.tsv" . However there is no description given for each KO in either files. Do I need to create a file? Could you please assist me in this regard
Hey @Lor-AM,
You would need to run add_descriptions.py
with the --custom_map_table
option pointing to the appropriate mapfiles in this directory: https://github.com/picrust/picrust2/tree/master/picrust2/default_files/description_mapfiles
.
Hopefully that helps!
Cheers,
Gavin