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• CUFFDIFF BLAST2GO
  Hi, I want to use my cuffdiff out for BLAST2GO in Galaxy, kindly advise how can i configure cuff...
• problem in visualizing cuffdiff data
  I got result for cuffdiff in galaxy, but iam trying to visualize the output using CummRbund it sh...
• Empty Cuffdiff Output
  What does empty Cuffdiff FRPKM empty files means? I was not able to run my RStudio for my Cuffdif...
• Galaxy With Cuffdiff Output
  Dear all, I use cuffdiff in galaxy net version. The output are isoform.diff , gene.diff ...etc...
• Extract-Cuffdiff & Plot-Cuffdiff tools missing in NGS:RNAseq
  Hi, I was testing the new Cuffdiff implementation in Galaxy and I produced a Cuffdiff output in ...
• Cuffdiff does not produce an output file
  Hi, I am using Cuffdiff with Galaxy and even though the jobs show complete there are no output f...
• No output from Cuffdiff
  Hi, I've been running Cuffdiff on Galaxy today, exactly as I did last week (using the same refer...
• Analysis of Galaxy Cuffdiff output by CummeRbund
  Hi, I am trying to use cummeRbund in Rstudio to analyse my Galaxy Cuffdiff output. However I am ...
• Cuffdiff analysis output
  Hi there, I tried to run cuffdiff with the annotation of iGenome but still no sucess to have a o...
• where can I get Info files for CummeRbund from Galaxy cuffdiff?
  Hello, I am working with CummeRbund package for Cuffdiff output. It is a great package that make...
• CUFFDIFF in Galaxy not working for past few days
  I have been using Galaxy webserver at usegalaxy.org for my works, and suddenly for the past few d...
• CummeRbund input from Cuffdiff output
  Hello All I just finished my Cuffdiff on a set of practice data, and I am planning to visualize...
• HISAT2 incompatible with CuffDiff ?
  Hey I'm trying to compare the transcript expression levels between two conditions. I have put ...
• zero cuffdiff FPKM values SusScrofa
  Good morning, I am a beginner in RNAseq Galaxy interface and I have a problem with all zero FPKM...
• Tarcking ID in cuffnorm output and TestID (geneID) in cuffdiff output, are they the same?
  Dear all, I found in the output of cuffnorm there was no locus information corresponding to my d...
• Cummerbund - Biological Replicates Problem
  Dear all, I would like to visualise by CummeRbund the Cuffdiff results obtained using the cuffli...
• cuffdiff & cummerbund
  I'm very surprised to see that the only available output for cuffdiff is now in the cummerbund co...
• Can standard CuffDiff output be used as input into CummeRbund on Galaxy?
  I've been analysing some RNA-seq data in triplicate and I want to compare replicates by generatin...
• Cuffdiff output redundant genes
  Hello, I am using the Galaxy tool Cuffdiff to analyze the RNA-seq data. But for the output file "...
• Replicates In Cuffdiff Output
  Hi, I am running cufflinks and cuffdiff using Galaxy. I am however wondering if it is not suppos...
• Galaxy Cuffdiff output doesnt correspont the output from manual
  Hi people! I was trying to run the local version of cummeRbund but the files that I get from the ...
• Cuffdiff-output file gene differential expression-Degust
  Dear Galaxy team, Is there a tutorial to show how to load and visualize cuffdiff output files (e...