Getting data from TOM matrix (WGCNA)
0
0
Entering edit mode
3.1 years ago
cgias ▴ 20

Hello,

I would like to access the correlation in TOM matrix of a specific subset of genes. Manually, as it is a matrix, there're no row/column names so I can't identify the genes I'm looking for.

In the manual, I've seen the function

subsetTOM(
  datExpr, 
  subset,
  corFnc = "cor", corOptions = "use = 'p'", 
  weights = NULL,  
  networkType = "unsigned", 
  power = 6, 
  verbose = 1, indent = 0)

but I couldn't figure out what is the "subset" object and haven't found anything online either. It is described as

a single logical or numeric vector giving the indices of the nodes for which the TOM is to be calculated

Is it a vector of Trues and Falses for each gene, being True the ones I am looking for?

wgcna tom matrix • 630 views
ADD COMMENT

Login before adding your answer.

Traffic: 1158 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6