ct.regularizeContrasts: Regularize Two Screening Results Objects

In OscarBrock/gCrisprTools: Suite of Functions for Pooled Crispr Screen QC and Analysis

Regularize Two Screening Results Objects

Description

This function prepares multiple 'gCrisprTools' results dataframes for comparison. Specifically, it checks that all provided data frames are valid result objects, converts each to the target-wise 'simpleResult' format, removes signals that are not shared by all objects, places their rows in identical order, and then returns the simplified dataframes as a list.

This function is largely meant to be used by other gCrisprtools functions, although there are occasions when an analyst may want to call it directly. Often, it is useful to pass the 'collapse' argument to 'ct.simpleresult()' in cases where libraries and technologies differ between screens.

Usage

ct.regularizeContrasts(dflist, collapse = c("geneSymbol", "geneID"))

Arguments

dflist	A list of results dataframes. Names will be preserved.
collapse	Column of the provided resultsDFs on which to collapse values; should be 'geneSymbol' or 'geneID'.

Value

A list of the in-register 'simpleResult' objects, with length and names identical to 'dflist'.

Examples

data('resultsDF')
lapply(ct.regularizeContrasts(list('df1' = resultsDF[1:300,], 'df2' = resultsDF[200:400,])), nrow)

OscarBrock/gCrisprTools documentation built on Oct. 25, 2022, 7:29 a.m.