Question: how to create input file for WGCNA
0
gravatar for nitishd.dave
2.2 years ago by
nitishd.dave20
India
nitishd.dave20 wrote:

I have 25 genes and its pearson coefficient with SOS1 gene and want to create a network correlation with it so, can anyone tell me how to do it on WGCNA and how to create its input file.

network analysis • 1.2k views
ADD COMMENTlink written 2.2 years ago by nitishd.dave20

You just have the correlation of these genes to just 1 other gene (SOS1) and you do not even have the original expression values?

ADD REPLYlink modified 2.2 years ago • written 2.2 years ago by Kevin Blighe60k

Hi kevin, in addition to pearson coefficient we have its probe id, gene id, and function and want to create a network correlation of 25 genes with this sos1 gene for salt tolerance. is it possible??

ADD REPLYlink written 2.2 years ago by nitishd.dave20
1

All that you require is any type of data-matrix, generally, with genes as rows and samples as columns. For WGCNA, the data does not have to be normally-distributed but should be QC checked and have outliers removed. Then, all that you need to do is to follow the WGCNA Tutorial, as mentioned by Wouter.

ADD REPLYlink modified 16 months ago • written 2.2 years ago by Kevin Blighe60k
2
gravatar for WouterDeCoster
2.2 years ago by
Belgium
WouterDeCoster43k wrote:

Please follow the excellent tutorial of WGCNA.

ADD COMMENTlink written 2.2 years ago by WouterDeCoster43k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 737 users visited in the last hour