Hi,
I have several experimental groups with more than one samples each.
I want to find out (for a group of genes) which isoforms/splice variants are expressed (and if they are differentially expressed).
Ideally, I need a program which tells me the exons of each isoform (genomic location and fpkm/rpkm)..
So far I tried Cuffdiff and SGSeq (R-package), but I am not too happy with the output.
Which tool, program, script couldt fit my experimental design the best?
Thank you!
I have several experimental groups with more than one samples each.
I want to find out (for a group of genes) which isoforms/splice variants are expressed (and if they are differentially expressed).
Ideally, I need a program which tells me the exons of each isoform (genomic location and fpkm/rpkm)..
So far I tried Cuffdiff and SGSeq (R-package), but I am not too happy with the output.
Which tool, program, script couldt fit my experimental design the best?
Thank you!