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• Cummerbund visualization of expression plot
  I am following the NGS101-16 video on Cuffdiff/Cummerbund to learn how to use Cummerbund. For ex...
• run.info file and read_groups info file from cuffdiff Galaxy
  Hi, I am trying to make plots by CummeRbund using Cuffdiff outputs I got from Galaxy. However wh...
• 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 ...
• CummeRbund input from Cuffdiff output
  Hello All I just finished my Cuffdiff on a set of practice data, and I am planning to visualize...
• Is There Web-Based Cummerbund?
  Dear All, I am going to visualize Cuffdiff outputs. I understand that CummeRbund can be used to ...
• 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...
• Read_Group_Tracking Files Are Not Enough For Cummerbund Visualisations On Replicates?
  Hi, Cuffdiff in Galaxy produces "read_group_tracking" files. However, I wonder if these files ar...
• Has anyone successfully run CummeRbund in Galaxy?- Gene ID Null
  I am struggling with the final steps of my RNA-Seq pipeline. The data has been cleaned up, mapped...
• 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...
• heat map generation in cummeRbund
  hello, i am not able to generate heat map on my data in cummeRbund. it shows the following error...
• 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 ...
• cummeRbund missing files
  Hi, i want to run cummeRbund in R from my cuffdiff output files but galaxy doesnot gives me coun...
• 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 ...
• 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...
• Cummerbund - Biological Replicates Problem
  Dear all, I would like to visualise by CummeRbund the Cuffdiff results obtained using the cuffli...
• CummeRbund error in galaxy local
  Hi is there a protocol or tutorial that shows how to use CummerRbound after cuffdiff ? I downloa...
• Problems Accessing The Data
  Dear galaxy,                       I am not able to get the requisite output when I try the optio...
• "Paired collection" as output
  Hi, I am currently messing around with the new awesome collections and pairedcollections feature...
• Problem with Reference genome from history in Tuxedo
  Hi, 1- I am using Tuxedo for tomato. I run the workflow from the shared data. In the TopHat sec...
• cummerbund tool error
  Hello, I recently tried differential gene expression analysis using an established workflow. I h...
• 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 ...