Entering edit mode
4.9 years ago
lookamrita
•
0
Hi, I have two sample (Control and Test) RNA seq data (Ref: Human) after analyzing the files using Star and GATK pipeline , I Have used Gfold to check the differential expression analysis. Now I have Gfold output file of differential expression analysis. I want to draw heatmap using it. There are 475 genes which are having more than 2 log2fc, I want that genes to use in heatmap from the Gfold output file. What is the best way to draw heatmap using it? New in RNA-seq. Need help. Thanks in advance
Please see as a starting point:
Heatmap based with FPKM values
There are plenty of posts here on Biostars. Please use the search function.
Even though I have log2fc value, shall I use FPKM only. Please see the example values and columns in my file. This is how it looks like:
You can use whatever you think is best. I linked this one for example code that you can adapt to feed in your FCs.