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• Can't map my pairend samples with TopHat after grooming.
  Hello everyone, I need to do TopHat my groomed data files, which are pair-ended. I groomed my ...
• Help
  Hello; I am having the following problems with RNAseq using galaxy; we have installed the Galaxy...
• TopHat2 run with the error message "The Cluster DRM System has terminated this Job"
  Hello, I use Galaxy regularly, and used TopHat2 earlier without any problem. However, just a day ...
• Sam To Bam Conversion Problem
  Hello Galaxy Support, I generated an alignment with a "fastq groomed" illumina dataset using the...
• Is my fastq file broken
  Hi Biostar My question is when I uploaded my fastq file to galaxy, it can not go to groom. Norma...
• Assembly tools will not run
  I am trying to run the Unicycler assembler on a fastq paired-end dataset (groomed and joined or u...
• [bam_parse_region] fail to determine the sequence name
  I'm trying to run differential expression using EdgeR and/or DEseq2 on the Ratsch Lab galaxy serv...
• problem with TopHat
  I am very sorry to disturb you with these questions, however I am trying to align 4 bam files (af...
• Tophat failed to run on RNAseq data?
  Tophat failed to run on my RNAseq data. Before running tophat, I groomed, trimmed, and filtered m...
• Fastq Joiner Problem
  Hi, I am trying to join two groomed fastq files from a paired-end Illumina read using the fastq j...
• Bowtie trouble for aligning small RNA reads
  Hi there, I’ve been trying to use Bowtie to align my small RNA NGS reads (fastq groomed, for San...
• Problem with Mapping
  Hi there, First of all I would like to thank you for providing an amazing web tool for us to ana...
• Unicycler genome assembly failure
  Hi all, I have some Illumina reads and Nanopore reads I'd like to assemble using Unicycler. I u...
• Fastq Splitter Produced Empty Dataset, Please Help
  I have problem to split a paired-end FASTQ dataset into two separate datasets. In order to explai...
• Jobs caught in long term grey zone (!)
  Cufflinks job was in grey history with (!) for > 24hrs. "This is a new dataset and not all of ...
• Problem with PEAR
  I have strange issue with Pear on my local Galaxy comparing to Main Galaxy: I have pair ends - R...
• Metadata Error When Using Megablast
  Hello, I am attempting to megablast a FASTA file containing ~45,000 records of 100nt each agains...
• FastQ Groomer Problem - Syntax
  Hi, I have searched all over and I cannot find a solution to this. When I run the FastQ groomer ...
• Bam Files Loading And Mandatory Grooming
  Hello everyone Whenever we try to load BAM files without copying them, we get an error stating t...
• Inputs for the FASTQ Grooming
  Hi All, I am a newbie to Galaxy and Bioblend programming and have problem to find out the the na...