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• PEAKachu No folder with .gff files specified Error
  Have you experienced this error for PEAKachu in Galaxy?: ** Initializing replicons and read...
• Mount Issue
  HI, I am getting this when start cluster first time . Error mounting file system '/mnt/galaxyData...
• Gatk
  Dear happy users of Galaxy, We are running Galaxy locally. It's a very fine tool! By now everyt...
• HISAT2 output error
  Hello, We recently ran a set of samples through galaxy from Genewiz. Of our samples, two are not...
• slurm Installation with Galaxy: Error python: error: Couldn't find the specified plugin name for auth/none looking at all files
  I'm attempting to install a slurm cluster on my Galaxy instance. Ubuntu 18.04 base. installed a...
• Input For Gatk Depthofcoverage
  Hi Galaxy Team, I'm trying to use GATK DepthOfCoverage, and to give a BAM file of alined results ...
• getting number of SNPs, insertion/deletion from VCF with VCFfilter
  Hello, I am trying to extract from a VCF file the number of SNPs: Single nucleotide variants , I...
• Configuring indices for Bismark
  Hi, I'm trying to get Bismark running on my Galaxy instance, but am having problems which I think...
• How to create groups of tools and properly establish their dependencies?
  I now want to create another tool, in the same repository as the previous tool I made. So now tha...
• Trouble using interval2maf.py
  Hello, I have installed a copy of the main Galaxy distribution onto my local system - and am cur...
• Tool Without Input Parameters
  Hi, Is there a way to provide a tool through galaxy that doesn't need any input parameters? If I...
• 'Problem determining Galaxy's configuration'
  I'm trying to install galaxy for local use. I have cloned the github repo and setup a conda envir...
• Impossible to use Htseq-count on BAM files from Tophat2
  Hello, I'm currently facing troubles using galaxy. I want to compare differentially expressed ...
• Unspecified Genome Build
  I'm trying to use the "Extract Genomic DNA" feature from "Fetch Sequences" on Cufflinks-assembled...
• Unable To Import Dataset From History Into Data Library
  Dear Galaxy Users, Since I've updated my Galaxy version I'm unable to import any dataset from my...
• Error from HISAT2 when using fasta data retrieved from Get Data: EBI SRA
  I have uploaded files from EBI then I run the HIST with the following setting Source for the re...
• Unable To Import Dataset From History Into Data Library
  Dear Galaxy Users, Since I've updated my Galaxy version I'm unable to import any dataset from my...
• mapping NGS data with BWA for Illumina
  Hello!   i am trying to map single-end reads using BWA for Illumina but an error accoured: Er...