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• mtDNA demo SAM to BAM problem GALAXY
  Hello Folks, I've been trying to run through the GALAXY.org mtDNA workflow demo, the first one, ...
• Bam datasets to filter
  I need to filter bam dataset on 2 conditions `condition1 Mapquality More than 20 Filter2 Ispr...
• Filter BAM file by size
  I'm attempting to restrict the BAM file using the Filter tool to a size less than 100,000 bp. Ho...
• mixing collections and "multiple" input tools
  I'm trying to modify a workflow to work on list collections. Most tools work as expected without ...
• Problem with Filter SAM or BAM, output SAM or BAM files on FLAG MAPQ RG LN or by region (Galaxy Version 1.1.1)
  First i don't know if this is the correct place to report tool problem. I did not get any bug dat...
• ChIP-seq mapping with Bowtie for Illumina 1.1.2
  Hi, I mapped my chip seq data with 'Map with Bowtie for Illumina 1.1.2' and used 'Filter SAM or ...
• Filter Pileup In Sam Tools
  NGS: SAM Tools I have generated a simple 6 column pileup from my BAM file but when I try to use ...
• Problem With Sam-To-Bam Conversion
  Hello, I am trying to map Illumina paired-ends reads from the nematode Caenorhabditis briggsae. ...
• An error occurred setting the metadata for FIlter Bam/SAM files
  I am getting error in setting the metadata after filter BAM/SAM files. I tried using auto-detect ...
• Peak Calling on BED files
  This is somewhat of a naive question. I've been using MACS2 on galaxy to call peaks on my ChIP-s...
• Can't filter unmapped reads in my BAM file
  Hello everyone. I'm a newbie in bioinformatics and I'm trying to filter a BAM file using the Gala...
• Filter Tool
  (Starting new thread on galaxy-user.) Jagat, It depends what filter tool you're using and what ...