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jiwoongbio / FMAP

Functional Mapping and Analysis Pipeline for metagenomics and metatranscriptomics studies
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Heatmap of KOs used in pathway analysis #11

Open lwebercoralgirl opened 6 years ago

lwebercoralgirl commented 6 years ago

Hello!

I would like to make a heatmap of the abundances of KOs that are linked to the significantly enriched pathways across all of my samples. Is there a way to do this using FMAP? For example, if the photosynthesis pathway is enriched across a sample group, would it be possible to link the pathway back to the KO's used to construct that pathway and then construct a data matrix of those abundances?

Thanks for your time!

jiwoongbio commented 4 years ago

There will be a file named "KEGG_orthology2pathway.txt" under "FMAP_data" directory which includes the links between KEGG orthology and pathway. It will be helpful to select orthologies involved in your interesting pathway and generate sub-matrix table from the output of "FMAP_table.pl". Thanks.