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Old 04-02-2017, 10:29 PM   #1
alex_ander
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Location: Germany

Join Date: Mar 2017
Posts: 1
Default Tool to find splice variants

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!
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isoforms, rna-seq, rna-seq advice, splice variant, splice-index

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