Question: RNA-seq heatmap but compared to control rather than average expression
0
gravatar for mar77
10 weeks ago by
mar7720
mar7720 wrote:

Sorry if this is a repeat, I couldn't find anything but please just redirect me if there is already posts about this

I have data from an RNA-seq experiment with a control condition and 10 other experimental conditions, with 3 replicates for each condition. I've been able to generate a heatmap using the Heatmap package in R and as I understand it underexpression/overexpression is shown compared to the average expression across all the samples. Is it possible to generate a heatmap where the changes in expression are shown in comparison to the control samples? And if this is possible how do you do it?

heatmap rna-seq R • 148 views
ADD COMMENTlink modified 10 weeks ago by jared.andrews078.0k • written 10 weeks ago by mar7720
2
gravatar for jared.andrews07
10 weeks ago by
jared.andrews078.0k
Memphis, TN
jared.andrews078.0k wrote:

Sure, just plot the log fold change for each sample, remove the control samples, and don't scale by rows.

ADD COMMENTlink modified 10 weeks ago • written 10 weeks ago by jared.andrews078.0k
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: 1103 users visited in the last hour