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  Hello! I am trying to answer some very broad questions with some chromosomal genomic data. So fa...
• Cuffdiff crashing suddenly
  Hello, I'm running cuffdiff and this error comes up when it runs. Fatal error: Matched on e...
• Data Table Named 'Bowtie2_Indexes' Is Required By Tool But Not Configured
  I am getting this error in Bowtie2 and Tophat2: Data table named 'bowtie2_indexes' is required by...
• Cuffdiff 2.2.1.5 error with cummeRbund SQlite. "Fatal error: Exit code 1 () -- use version 2.2.1.3 instead
  Hi, so as a disclaimer, I am very new to RNA seq analysis. I received the following error while r...
• installation of perl modules from toolshed
  Hello, I am writing custom tool for Galaxy that uses perl scripts. These perl scripts use specif...
• Tests on a tool with an input of type data_collection
  Hello folks, My Tool#1 is using a data_collection type created by Tool#2 as an input parameter. ...
• Enrichment analysis and Fisher's exact test
  I have a gene list and a table file with GO terms.  How can I make the gene list be used in the e...
• Making Changes to Data Tables in Tools
  Lets say I wanted to have a tool that would install a genome and annotation information. And lets...
• Updating a local ToolShed repo failed because it don't find index data
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• Data managers tool: the content of data table disappear after restart Galaxy
  Hi there, I am developing a data managers tool to add trained data. The tool works and can creat...
• GSEA to RNA-seq data
  Good morning, I want to do GSEA to my rna-seq data, so i have my dataset built with gene names an...
• Critical Feedback
  This student was more adventurous. I think he actually could do more of what he tried with more e...
• How to get counts for transcripts for all replicates
  Hi BIOSTARS, I have lots of samples that have been aligned to mm10 using RNA STAR. I have succes...
• Can't use cached bed file
  Hey, I wanted to have built-in BED files specific to the genome references that I added to my lo...