View Single Post
Old 04-25-2016, 08:08 AM   #2
fanli
Senior Member
 
Location: California

Join Date: Jul 2014
Posts: 198
Default

Quote:
Originally Posted by KateShepard View Post
My question is now should I merge the 5 cufflinks assemblies together using cuffmerge, and use the merged assembly as my master transcriptome?
Yes, that's the intended purpose of cuffmerge.

Quote:
Originally Posted by KateShepard View Post
Also, is there a good tool/approach to visualise the variability between my biological replicates?
PCA, heatmaps, and clustering are useful for examining variability in your replicates. Check out the DESeq2 or edgeR packages for details.
fanli is offline   Reply With Quote