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• Need help with "Map with Bowtie for Illumina" tool
  Hi, I mapped my illumina sequences with one reference bacterial genome and got bam file. Does any...
• Reference genome of Arctica islandica
  Hello, I work on mitochondrial genome of Bivalvia. I would like to align reads generated by NGS ...
• Asking About Allignment Figure
  Hello, I am sorry, I did not know about the appropriate address ( galaxy-user@bx.psu.edu) for as...
• Using BWA with Illumina data and metagenomic "reference genome"
  Hi, I'd like to try using BWA to align Illumina reads to some contigs a collaborator made from my...
• Re: [Galaxy-Bugs] Asking For The Third Times
  Hello, I am sorry, I did not know about the appropriate address (galaxy-user@bx.psu.edu) for ask...
• Bowtie Reference Genome
  Dear galaxy users, I am trying to map some multiplexing bisulfite PCR data (Illumina) to o...
• Request To Add Reference Genome
  Hello Galaxy Team, I am writing to request that the genome of *Sinorhizobium meliloti *1021 be a...
• reference genome not present in Galaxy
  good morning,   i would like to use Bowtie or BWA to map reads from Illumina sequencing to the ...
• Map With Bowtie Or Tophat?
  Hi all, what is the difference between using "NGS:mapping-------Map with Bowtie for Illumina" and...
• Bowtie mapping result
  Hello, I used "Map with Bowtie for Illumina" tool to map the sequences reads to the reference ge...
• Workflow to clean data prior to variant call
  Hi,  I would like some advice on the workflow I'm using. 1- I have WGS data from bacteria, I've...
• Using Segments Of Sequences As A Reference Genome - Bowtie For Illumina
  Dear all, My problem seems like something that should have a very simple solution from my end and...
• How to add my reference genome to use RNA STAR in usegalaxy.org
  "If your genome of interest is not listed, contact the Galaxy team (--genomeDir)" It is my first ...
• Comparing the Single and Paired End Assemblies
  Hello there!   Im using this touorial to analyze and assembly mate pair NGS reads for my illumi...
• How to configure genome in "Map with BWA" (existing tool) after adding it to my local section
  Hi. I have added the lines below to the section I made in config/tool_conf.xml file and "Map with...
• Importing Reference Genome Into Galaxy For Tophat2
  Hi, I am new to the field of RNA-Seq analysis. I'd be very greatful if somene could help me with ...
• Need help with "Map with BWA for Illumina" tool
   I don't know why the mapping procedure doesn't work.  My g-DNA sequence is fatsaq format, it can...
• How to upload a reference genome
  Hi!, I am a new user in the Galaxy project and I want to map my reads with a genome that is not i...
• Upload Genome Index To Galaxy For Bowtie Alignment?
  Hello, On the Galaxy web interface, the option to map sequences with Bowtie for Illumina reads i...
• SnpEff (Galaxy) troubleshoot
  I have got Mpileup data. I wish to further understand SNP effect using snpeff. Unfortunately, in ...
• Bowtie for Illumina using reference genome of pisifera oil palm tree
  How I can map reads against pisifera oil palm tree genome or against scaffolds? Thank you for a ...
• Customizing Mm9 Mouse Reference Genome And Then Using That As The Ref Genome When Uploading Illumina Data
  I would like to filter out the mm9 mouse build ref genome to only show MspI sites, and then use t...