Hi people! I was trying to run the local version of cummeRbund but the files that I get from the cuffdiff output from galaxy werent the same extension, the manual from cummeRbund says that cuffdiff outputs are those files:
isoforms.fpkm_tracking genes.fpkm_tracking cds.fpkm_tracking tss_groups.fpkm_tracking
isoform exp.diff gene exp.diff tss group exp.diff cds exp.diff splicing.diff CDS.diff promoters.diff
I tried to change the extension of the files to try to run the readCufflinks() to create the database to visualize the results but wasnt possible, anyone has a hint?
I already tried to use the cummeRbund from galaxy but isnt working, I cant create expression and volcano plots.
Thanks so much!