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• Maq Output
  Does anyone know if Maq can produce alignment data in SAM format? Currently we can only generate ...
• Can we map fastq files with paired ends using bwa mem on galaxy?
  I have a collection of timmed fastq files from WES, each contain paired ends. Is it possible to m...
• Bisulfite Seq
  Do we have any tool which can be used for analyzing and QC check for bisulfite sequencing. I have...
• Private vs Public Galaxy: different outcomes following Fastq upload
  We are experimenting with setting up our own cloud-based Galaxy server using the Cloudman tools a...
• Should galaxy default to fastqsanger instead of fastq?
  It's such a common problem that people end up with fastq files (instead of fastqsanger) that I th...
• Re: Fastq To Fasta Tool
  Hi Omri, Thanks for reporting this issue. There were two different FASTQ to FASTA tools loaded ...
• Decompressing files on local galaxy
  HI, I am using local instance of Galaxy. I have uploaded my dataset and they are in fastq.gz fo...
• not select Fastq File
  I get data (Fastq File Illumina), but when I would like to use Fastq summary statistics (NGS>Q...
• TCR repertoires - how can I upload to Galaxy?
  Hi, I want to upload data of T Cell Receptor repertoires. The data is not fastq, but rather text...
• Concatenate fastq files in galaxy
  Hi, I have several fastq files that I want to merge. can anybody share how to concatenate multipl...
• Fastq File Generated By Samtools Can'T Be Recognized
  Good day. I'm trying to use Galaxy's FASTQ to FASTA converter. However, the fastq file I generat...
• Transformation Fastq Files
  Hi there, I am not quite sure if Galaxy can help me but I am looking for way to transform a fast...
• Forward and Reverse reads from paired end sequencing
  The fastq dataset we have after illumina whole genome sequencing is in the form of two files - fo...
• trimgalore on interleaved paired-end fastq files
  Hi, I'm analyzing interleaved paired-end fastq files downloaded via fastq-dump. I am trying to r...
• 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...
• fastq convert problem
  Hi. I have a problem using my data on galaxy for proces radtags. First I had to trim my raw data ...
• How do I down sample a fastq in Galaxy?
  I want to make a small fastq file for testing and demonstration proposes.  On the command line I ...