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• Salmon: Error while indexing Human transcriptome file
  Hi there! I downloaded what I hope to be a human transcriptome data file from biomart. I select ...
• Fatal error with DESeq2 when processing TPM-based Salmon files and using a tabular transcript-gene mapping file
  Hi there, I have used Salmon to map RNAseq reads to a transcriptome. I then proceeded to anal...
• salmon tool syntax error on private galaxy instance
  Hi I installed the salmon tool (Galaxy Version 0.8.2) on to my private instance (galaxy version...
• Variant Calling Free Bayes BamLeftAlign
  When trying to run Galaxy on the platform I keep having the same error message when using FreeBay...
• what is a "Tabular file with Transcript - Gene mapping" in DESeq2?
  I have RNA Seq data from two conditions using a non-model organism. I constructed a trinity assem...
• Installing Sailfish or Salmon
  Hi everyone, We are setting up a Galaxy instance (Cloudman, EC2) to teach an RNA-Seq class and w...
• Salmon unique reads
  I have found Salmon a very good tool to run a set of RNA-seq reads against a fasta file and get m...
• salmon gene quant to DESeq2
  Hi again - I successfully ran salmon on my fastq files, including gene-level summary via a simpl...
• how prepare File containing a mapping of transcripts to genes under Salmon
  Hi, I don't know exactly which columns should be put for Salmon to convert transcript to the gen...
• Probem with the Trinity de-novo assembly for big dataset (128GB)
  I had 48 paired end samples, I concatinae all the 24 forward and reverse paired separately and tr...
• Salmon human GTF or tabular annotation reference input dataset
  Hello I would like to use salmon to do RNA seq analysis. I run it successfully with ensembl refe...
• Job Submission Failed
  Hi, I keep getting a "Job Submission Failed. The Server could not complete the request. Please co...
• is mothur tool working ?
  I tried to use mothur (fastq.info) and I got an library access error: Fatal error: Exit code 127...
• Deseq2 with 0 lines in output
  Hi, Using Galaxy main (usegalaxy.org) I have been happily runnning Salmon followed by Deseq2 to ...
• SALMON Tab Delimited Transcript Map File Error
  Hi, I'm running SALMON on a local instance and have run into an error when trying to run the pro...
• Error when importing data from Shared Data
  I'm following along with the Coursera course on Galaxy, and in the Sequence Data Quality Control ...
• MACS2 Error while running a shared workflow
  Hi, I used a workflow for ChIP seq, " ChIP seq analysis for intersect"; owner: klaourakis, June13...
• FreeBayes "error while loading shared libraries"
  While using Freebayes for VCF manipulation, I encountered the following error:- "freebayes: error...