ResembleDepmap {MAGeCKFlute}R Documentation

Compute the similarity between customized CRISPR screen with Depmap screens

Description

Compute the similarity between customized CRISPR screen with Depmap screens

Usage

ResembleDepmap(dd, symbol = "id", score = "Score", lineages = "All",
  method = c("pearson", "spearman", "kendall")[1])

Arguments

dd

A data frame.

symbol

A character, specifying the column name of gene symbols in the data frame.

score

A character, specifying the column name of gene essentiality score in the data frame.

lineages

A character vector, specifying the lineages used for common essential gene selection.

method

A character, indicating which correlation coefficient is to be used for the test. One of "pearson", "kendall", or "spearman".

Value

A data frame with correlation and test p.value.

Author(s)

Wubing Zhang

Examples

dd.rra = ReadRRA(rra.gene_summary)
## Not run: 
  rra.omit = OmitCommonEssential(dd.rra)
  depmap_similarity = ResembleDepmap(rra.omit)
  head(depmap_similarity)

## End(Not run)

[Package MAGeCKFlute version 1.6.5 Index]