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bioc
PAST:Pathway Association Study Tool (PAST)
PAST takes GWAS output and assigns SNPs to genes, uses those genes to find pathways associated with the genes, and plots pathways based on significance. Implements methods for reading GWAS input data, finding genes associated with SNPs, calculating enrichment score and significance of pathways, and plotting pathways.
Maintained by Thrash Adam. Last updated 5 months ago.
5 stars 5.70 score 7 scripts
raghvendra5688
func2vis:Clean and Visualize Over Expression Results from 'ConsensusPathDB'
Provides functions to have visualization and clean-up of enriched gene ontologies (GO) terms, protein complexes and pathways (obtained from multiple databases) using 'ConsensusPathDB' from gene set over-expression analysis. Performs clustering of pathway based on similarity of over-expressed gene sets and visualizations similar to Ingenuity Pathway Analysis (IPA) when up and down regulated genes are known. The methods are described in a paper currently submitted by Orecchioni et al, 2020 in Nanoscale.
Maintained by Raghvendra Mall. Last updated 2 years ago.
1.00 score 2 scripts