deepSplit=2 vs deepSplit=4
0
1
Entering edit mode
9 months ago
hannicho ▴ 20

Hello there,

I am doing coexpression analysis on some data. I have around 7000 genes and 500 samples. I am using the step-by-step network construction method.

The number of modules change somewhat a lot when I use the deepSplit=2 vs deepSplit=4, I get 3 modules when I use the first and 13 when I use the second.

Moreover, when I plot the data using igraph, there are clearly more than 3 clusters that show up. I am afraid of grouping of the genes in the wrong modules. Is this much difference to be expected?

Is there a way to check the clustering of the genes is done correctly and if I should continue using the new sensitivity in deepsplit=4.

Thanks !

gene WGCNA Coexpression R • 590 views
ADD COMMENT

Login before adding your answer.

Traffic: 1066 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