prepareSignature: Prepare an L1000 Signature froma given differential gene...

In CogDisResLab/drugfindR: Investigate iLINCS for candidate repurposable drugs

Prepare an L1000 Signature froma given differential gene expression output

Description

This function takes a differential gene expression output from any pipeline like edgeR or DeSeq2 or any that give you the gene symbol, log_2 fold-change and p-value and transforms that into an L1000 signature for later processing.

Usage

prepareSignature(
  dge,
  geneColumn = "Symbol",
  logfcColumn = "logFC",
  pvalColumn = "PValue"
)

Arguments

dge	A dataframe-like object that has the differential gene expression information
geneColumn	The name of the column that has gene symbols
logfcColumn	The name of the column that has log_2 fold-change values
pvalColumn	The name of the column that has p-values

Value

A tibble with the L1000 signature.

Examples

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CogDisResLab/drugfindR documentation built on June 15, 2024, 9:30 p.m.