ResembleDepmap {MAGeCKFlute} | R Documentation |
Compute the similarity between customized CRISPR screen with Depmap screens
ResembleDepmap( dd, symbol = "id", score = "Score", lineages = "All", method = c("pearson", "spearman", "kendall")[1] )
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". |
A data frame with correlation and test p.value.
Wubing Zhang
file1 = file.path(system.file("extdata", package = "MAGeCKFlute"), "testdata/rra.gene_summary.txt") gdata = ReadRRA(file1) ## Not run: rra.omit = OmitCommonEssential(gdata) depmap_similarity = ResembleDepmap(rra.omit) head(depmap_similarity) ## End(Not run)