xGSEAconciser | R Documentation |
xGSEAconciser
is supposed to make GSEA results conciser by
removing redundant terms. A redundant term (called 'B') is claimed if
its overlapped part (A&B) with a more significant term (called 'A')
meets both criteria: 1) |A&B| > 0.9*|B|; and 2) |A&B| > 0.5*|A|.
xGSEAconciser(eGSEA, cutoff = c(0.9, 0.5), verbose = TRUE)
eGSEA |
an object of class "eGSEA" |
cutoff |
a cutoff vector used to remove redundant terms. By default, it has the first element 0.9 and the second element 0.5. It means, for a term (less significant; called 'B'), if there is a more significant term (called 'A'), their overlapped members cover at least 90 this term B will be defined as redundant and thus being removed |
verbose |
logical to indicate whether the messages will be displayed in the screen. By default, it sets to false for no display |
an object of class "eGSEA", after redundant terms being removed.
none
xPierGSEA
RData.location <- "http://galahad.well.ox.ac.uk/bigdata_dev" ## Not run: eGSEA_concise <- xGSEAconciser(eGSEA) ## End(Not run)