filterCMapMetadata: Filter CMap metadata

In cTRAP: Identification of candidate causal perturbations from differential gene expression data

Description

Filter CMap metadata

Usage

filterCMapMetadata(
  metadata,
  cellLine = NULL,
  timepoint = NULL,
  dosage = NULL,
  perturbationType = NULL
)

Arguments

metadata	Data frame (CMap metadata) or character (respective filepath)
cellLine	Character: cell line (if NULL, all values are loaded)
timepoint	Character: timepoint (if NULL, all values are loaded)
dosage	Character: dosage (if NULL, all values are loaded)
perturbationType	Character: type of perturbation (if NULL, all perturbation types are loaded)

Value

Filtered CMap metadata

See Also

Other functions related with the ranking of CMap perturbations: as.table.referenceComparison(), getCMapConditions(), getCMapPerturbationTypes(), loadCMapData(), loadCMapZscores(), parseCMapID(), plot.perturbationChanges(), plot.referenceComparison(), plotTargetingDrugsVSsimilarPerturbations(), prepareCMapPerturbations(), print.similarPerturbations(), rankSimilarPerturbations()

Examples

cmapMetadata <- loadCMapData("cmapMetadata.txt", "metadata")
filterCMapMetadata(cmapMetadata, cellLine="HEPG2", timepoint="2 h",
                   dosage="25 ng/mL")

cTRAP documentation built on Nov. 8, 2020, 10:58 p.m.