gsePathway {ReactomePA} | R Documentation |
Gene Set Enrichment Analysis of Reactome Pathway
gsePathway( geneList, organism = "human", exponent = 1, minGSSize = 10, maxGSSize = 500, eps = 1e-10, pvalueCutoff = 0.05, pAdjustMethod = "BH", verbose = TRUE, seed = FALSE, by = "fgsea", ... )
geneList |
order ranked geneList |
organism |
organism |
exponent |
weight of each step |
minGSSize |
minimal size of each geneSet for analyzing |
maxGSSize |
maximal size of each geneSet for analyzing |
eps |
This parameter sets the boundary for calculating the p value. |
pvalueCutoff |
pvalue Cutoff |
pAdjustMethod |
pvalue adjustment method |
verbose |
print message or not |
seed |
logical |
by |
one of 'fgsea' or 'DOSE' |
... |
other parameter |
gseaResult object
Yu Guangchuang