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krumsieklab / maplet

R statistical toolbox for metabolomics
GNU General Public License v3.0
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Pathway enrichment analysis #67

Open KelseyChetnik opened 3 years ago

KelseyChetnik commented 3 years ago

In GitLab by @kelsey.chetnik on Jun 15, 2020, 12:23

Extend the functionality of mt_stats_pathway_enrichment.R and mt_stats_pathway_enrichment_with_differential_analysis.R. Talk to Parviz to check what else can be done especially for the former.

KelseyChetnik commented 3 years ago

In GitLab by @danielgomari on Jul 13, 2020, 10:56

We wanted to add two methods to mt_stats_pathway_enrichment. One was MSEA (implanted in MetaboAnalyst), a GSAE-like enrichment method, where we could input a list of metabolites and pathways to do a set enrichment analysis. Another one was we wanted to add pathifier (https://www.bioconductor.org/packages/release/bioc/html/pathifier.html), where instead of genes, it would take metabolites as inputs.