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• MPileup SNP and indel caller (Galalxy Version 0.0.1) error
  Hi, I'm trying to rerun an MPileup job I successfully ran before, using MPileup SNP and indel cal...
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  Hello. I want to know what is the best tool to realign indels using galaxy. Thank you.
• CloudMap stuck on "Unified Genotyper SNP and indel caller (Galaxy Version 0.0.6)" -- Deprecated tools
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• Rat SNP/Indel calling using Galaxy
  Dear all, I'm in the process of trying to figure out the 'best' method for looking at SNP/varian...
• Indel Work Flow Questions
  Hi All,   I have a question about the NGS: Indel analysis and SNP Calling.   Assuming I...
• Does Unified Genotyper use any minimum and/or maximum read depth to call variants?
  Hi I am using GATK beta, and calling SNPs with Unified Genotyper (Unified Genotyper SNP and indel...
• SNP Profiling Tool
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• Finding Snp Differences Between Datasets
  Hi, I am trying to find SNPs and/or indel variants that differ between two groups of samples. Th...
• False negative results in GATK unified genotyper output
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• Indel Analysis
  Hi- I am using Galaxy for Indel analysis. Does the Indels from Sam analysis use Dindel to pull ...
• Exome Sequence Analysis Question - using GATK Unified Genotyper
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• SNP analysis using Galaxy
  Hello everyone, I am new to Galaxy. Is there any basic tutorial for doing SNP analysis using Galaxy?
• Ngs: Indel Analysis Tool Order
  Hello! I have a question about the NGS: Indel Analysis toolset in Galaxy. I hav...
• difference between MPileup multi-way pileup of variants and Generate pileup from BAM dataset
  hello everobody , in my project , i have to detect the variants (SNP and indels) in my genome se...
• Finding Indels
  I would like to be able to replicate what Galaxy does to find indels on my own machine. However,...
• Add Unified Genotyper to Local instance
  HI There, I tried to install the tool Unified Genotyper from the tool shed, and I was unable to ...
• How to install "NGS: Indel Analysis" tools
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• To determine frequency of crispr cas induced indels in bam files
  I have used CRISPR/Cas molecules to target a specific gene. I want to quantify the frequency of i...
• BCFtools output tabular
  Hi, I'm sorry for my naive question (but this is my first analysis)... Analysis: 19 PCR targett...
• Bowtie2/FreeBayes/mpileup variant detection on NGS of PCR amplicons around Cas9/CRISPR indels
  Hey threre, I have an MiSeq experiment using 24 indices where in each index I was sequencing 3 P...