Similar posts • Search »

• Cuffdiff Error on local Galaxy
  Hi, I am attempting to use the tool Cuffdiff on a local instance of Galaxy. I am getting the fol...
• Obsolete Cuffdiff Version In Main.G2.Bx.Psu.Edu
  Hi, I noticed that the version of cuffdiff used in main.g2.bx.psu.edu is really obsolete (0.0.5)...
• cummeRbund SQLite database error from Galaxy main CuffDiff tool
  I'm trying to create an SQLite database to download and use with cummeRbund by using the "Create ...
• CuffDiff is no more in the list of NGS:RNA-seq
  I cannot see anymore CuffDiff in the list opening NGS:RNA-seq. I need to use it. Help
• 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...
• Question About Cuffdiff
  Hi, I am confused about the first line in cuffdiff (using Galaxy on the cloud, not sure if it's ...
• Sparse (discrete) q values with Cuffdiff
  Hello everyone, Maybe this is more a question of statistics than bioinformatics but I thought yo...
• Using more memory than what allocated
  I keep getting this message when running cuffdiff "This job was terminated because it used more m...
• CummeRbund input from Cuffdiff output
  Hello All I just finished my Cuffdiff on a set of practice data, and I am planning to visualize...
• Solution For: Error Running Cuffdiff. Error: Cannot Open Reference Gtf File Condition, Control For Reading
  Hi, I ran into this error running cuffdiff. I had a hard time debugging this user error, so I th...
• No output from Cuffdiff
  Hi, I've been running Cuffdiff on Galaxy today, exactly as I did last week (using the same refer...
• Cuffdiff Errors: "Loading reference annotation" and "Inspecting maps and determining fragment length distributions".
  Hey, I have 30 individuals that have two samples each. I've had no problem running Cuffdiff bet...
• 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 ...
• 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...
• Same Rnaseq Samples Give Different Fpkm Values When Run Against Different Samples
  Hello, I am sure this has come up before and maybe I missed the answer. If in using cuffdiff I r...
• How to use cuffmerge and cuffdiff
  I am trying use Galaxy to analysis the yeast RNA-seq data. When I want to try the cuffmerge and c...
• Cuffdiff Tracking File Does Not Report All Genes And Trancrips From Reference Annotation?
  Hi, Galaxy user. I ran into a problem when using Cuffdiff 1.2.1 in Galaxy local instance to check...
• 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...
• Galaxy With Cuffdiff Output
  Dear all, I use cuffdiff in galaxy net version. The output are isoform.diff , gene.diff ...etc...