Identification of candidate causal perturbations from differential gene expression data

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Documentation for package ‘cTRAP’ version 1.2.0

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cTRAP-package cTRAP package
compareAgainstL1000 Compare against L1000 datasets
cTRAP cTRAP package
downloadENCODEknockdownMetadata Download metadata for ENCODE knockdown experiments
downloadENCODEsamples Download ENCODE samples
downloadL1000data Download L1000 data
filterL1000metadata Filter L1000 metadata
getL1000conditions List available conditions in L1000 datasets
getL1000perturbationTypes Get perturbation types
loadL1000perturbations Load L1000 perturbation data
performDifferentialExpression Perform differential gene expression based on ENCODE data
plotL1000comparison Plot L1000 data comparison
prepareENCODEgeneExpression Load an ENCODE gene expression data