Hi Giuseppe,
You're probably looking for something like Cummerbund:
http://compbio.mit.edu/cummeRbund/
which has a wrapper in the tool shed:
http://toolshed.g2.bx.psu.edu/view/jjohnson/cummerbund
This isn't on our public server yet, but it may be added in the future. You
might look into using
Hello,
I performed my mapping using tophat - cufflink - cuffmerge - cuffdiff.
With the information I have for my analysis so far, I can reannotate wrong
genes, check for correct splicing etc. However, I would like to perform
some analysis post-alignment, like for example samples clustering, volcano
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