loadCMapZscores {cTRAP} | R Documentation |
Load matrix of CMap perturbation's differential expression z-scores
loadCMapZscores(data, perturbationChanges = FALSE, verbose = TRUE)
data |
|
perturbationChanges |
Boolean: convert to |
verbose |
Boolean: print messages? |
Matrix containing CMap perturbation z-scores (genes as rows, perturbations as columns)
Other functions related with the ranking of CMap perturbations: [.perturbationChanges
,
as.table.similarPerturbations
,
dim.perturbationChanges
,
dimnames.perturbationChanges
,
filterCMapMetadata
,
getCMapConditions
,
getCMapPerturbationTypes
,
loadCMapData
, parseCMapID
,
plot.perturbationChanges
,
plot.referenceComparison
,
plotTargetingDrugsVSsimilarPerturbations
,
prepareCMapPerturbations
,
print.similarPerturbations
,
rankSimilarPerturbations
metadata <- loadCMapData("cmapMetadata.txt", "metadata") metadata <- filterCMapMetadata(metadata, cellLine="HepG2") perts <- prepareCMapPerturbations(metadata, "cmapZscores.gctx", "cmapGeneInfo.txt") zscores <- loadCMapZscores(perts[ , 1:10])