coexpressGenes-methods: description of function coexpressGenes

In stela2502/Rscexv: The backend for the SCExV (single cell expression view) server.

description of function coexpressGenes

Description

calculates the coexpression for all genes in all groups in the data set

Usage

coexpressGenes(
  dataObj,
  grouping = NULL,
  pcutoff = 0.05,
  file = NULL,
  keepCrap = 0
)

Arguments

dataObj	the Rscexv object
grouping	the column in the samples table that describes the grouping to use
pcutoff	the minimum p value to report the co-expression for
file	an optional filename to store the correlation to. This file can be read by Cytoscape (default = NULL)
keepCrap	sometimes you want to collect each and every correlation value - even the useless ones (default = 0)

Value

A table that contains correlation for EVERY gene gene combination in all groups + all data.

falied correlations will have a NA value but still a p value of 1.

stela2502/Rscexv documentation built on July 6, 2022, 9:02 p.m.