Isoform tracking in Cufflinks
Hi all,
I am using Cufflinks to look at differential expression of alternative splicing. The big problem that I'm running into is that when I go to visualize my data in IGV, I can't find the isoforms that Cufflinks has identified as "significant". In particular, I can't validate/confirm a single intron retention event as identified by the "i" class code, which you would think would be relatively easy, right?
Has anyone ever come up with a good way of tracking down the "significant" isoforms identified by Cufflinks?
Any help/advice/comments would be greatly appreciated!
I am using Cufflinks to look at differential expression of alternative splicing. The big problem that I'm running into is that when I go to visualize my data in IGV, I can't find the isoforms that Cufflinks has identified as "significant". In particular, I can't validate/confirm a single intron retention event as identified by the "i" class code, which you would think would be relatively easy, right?
Has anyone ever come up with a good way of tracking down the "significant" isoforms identified by Cufflinks?
Any help/advice/comments would be greatly appreciated!