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ACSNMineR (version 0.15.11)

Gene Enrichment Analysis from ACSN Maps or Gmt Files

Description

Compute and represent gene set enrichment or depletion from your data based on pre-saved maps from the Atlas of Cancer Signalling Networks (ACSN) or user imported maps. The gene set enrichment can be run with hypergeometric test or Fisher exact test, and can use multiple corrections. Visualization of data can be done either by barplots or heatmaps.

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Version

Install

install.packages('ACSNMineR')

Monthly Downloads

13

Version

0.15.11

License

GPL-2

Maintainer

Paul Deveau

Last Published

November 24th, 2015

Functions in ACSNMineR (0.15.11)

format_from_gmt

Import data from gmt files Convert gmt file to dataframe that can be used for anaysis
p.val.calc

Calculate p-value
multisample_enrichment

Automated gene set analysis for multiple sets
represent_enrichment

Graphic representation of enrichment
enrichment

Gene set enrichment analysis
cnum

Convert to numeric
enrichment_test

Result from enrichment test of "genes_test" on the ACSN maps
genes_test

Set of genes to test map
ACSN_maps

Atlas of Cancer Signalling Networks