matrix.overlap_res: Calculate the overlap of specific genes (uniquely expressed...

In barzine/barzinePhdR: Code developed while and for my PhD thesis at the EMBL-EBI

Calculate the overlap of specific genes (uniquely expressed in one tissue) between two studies.

Description

Calculate the overlap of specific genes (uniquely expressed in one tissue) between two studies.

Usage

matrix.overlap_res(DF1, DF2, ratio = -1, common = FALSE,
  selectSpe = FALSE, verbose = TRUE, report = "html")

Arguments

DF1	Expression data.frame of the first studie to be compared
DF2	Expression data.frame of the second studie to be compared
ratio	numeric; multiplicator for the number of genes used for the second data.frame compared to the first one. "-1" if all specific genes of each data.frame should be compared
common	argument passed on to overlapProtTrans.Specific; default: FALSE
selectSpe	boolean; default: FALSE. Allows to select the specific genes in the data.frames if not done beforehand.
verbose	boolean; default: TRUE. Allows outputting additional information
report	character string. Default: 'html'. Other option: "" When report='html' use cat.html instead of print

Value

a list of two matrices. One matrix with the overlap (in percentage) and another matrix with the corresponding p-values.

barzine/barzinePhdR documentation built on Nov. 23, 2024, 8:54 p.m.