loadL1000perturbations {cTRAP} | R Documentation |
Load L1000 perturbation data
loadL1000perturbations(metadata, zscores, geneInfo, sanitizeCompoundNames = FALSE)
metadata |
Data frame: L1000 Metadata |
zscores |
Data frame: GCTX z-scores |
geneInfo |
Data frame: L1000 gene info |
sanitizeCompoundNames |
Boolean: replace identifiers with compound names |
Perturbation data from L1000 as a data table
if (interactive()) { metadata <- downloadL1000data("l1000metadata.txt", "metadata") metadata <- filterL1000metadata(metadata, cellLine="HepG2") zscores <- downloadL1000data("l1000zscores.gctx", "zscores", metadata$sig_id) geneInfo <- downloadL1000data("l1000geneInfo.txt", "geneInfo") loadL1000perturbations(metadata, zscores, geneInfo) }