Package: fgsea 1.31.0
fgsea: Fast Gene Set Enrichment Analysis
The package implements an algorithm for fast gene set enrichment analysis. Using the fast algorithm allows to make more permutations and get more fine grained p-values, which allows to use accurate stantard approaches to multiple hypothesis correction.
Authors:
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fgsea.pdf |fgsea.html✨
fgsea/json (API)
NEWS
# Install 'fgsea' in R: |
install.packages('fgsea', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/ctlab/fgsea/issues
- exampleExpressionMatrix - Example of expression values obtained for GSE14308.
- examplePathways - Example list of mouse Reactome pathways.
- exampleRanks - Example vector of gene-level statistics obtained for Th1 polarization.
On BioConductor:fgsea-1.31.0(bioc 3.20)fgsea-1.30.0(bioc 3.19)
Last updated 2 months agofrom:6d2787e0b0
Exports:calcGseaStatcollapsePathwayscollapsePathwaysORAfgseafgseaLabelfgseaMultilevelfgseaSimpleforagesecagesecaSimplegmtPathwaysmapIdsListmultilevelErrorplotCoregulationProfileplotCoregulationProfileReductionplotCoregulationProfileSpatialplotEnrichmentplotEnrichmentDataplotGesecaTableplotGseaTablereactomePathwayswriteGmtPathways
Dependencies:BHBiocParallelclicodetoolscolorspacecowplotcpp11data.tablefansifarverfastmatchformatRfutile.loggerfutile.optionsggplot2gluegtableisobandlabelinglambda.rlatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigR6RColorBrewerRcpprlangscalessnowtibbleutf8vctrsviridisLitewithr