investigateTarget: Investigate a Given Gene or Drug *[Experimental]*

View source: R/investigateTarget.R

investigateTargetR Documentation

Investigate a Given Gene or Drug [Experimental]

Description

This function takes the name of a gene or a drug and a database to use to pull signatures from and then queries iLINCS to get concordant signatures

Usage

investigateTarget(
  target,
  inputLib,
  outputLib,
  filterThreshold = 0.85,
  similarityThreshold = 0.321,
  paired = TRUE,
  inputCellLines = NULL,
  outputCellLines = NULL,
  discordant = FALSE
)

Arguments

target

The name of the gene or drug

inputLib

One of "OE", "KD" or "CP". Marks the database to use.

outputLib

One of "OE", "KD" or "CP". Marks the database to query.

filterThreshold

The Filtering threshold.

similarityThreshold

The Similarity Threshold

paired

Logical. Whether to query iLINCS separately for up and down regulated genes

inputCellLines

A character vector of cell lines to restrict our search for input signatures to.

outputCellLines

A character vetor of cell lines to restrict the output search to.

discordant

Logical. Whether to look for discordant signatures

Value

A tibble with the the similarity scores and signature metadata

Examples

TRUE

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