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• What Galaxy tools can substitute VTTools for preprocessing VCF file before the SNPEff data input?
  What Galaxy tools can substitute VTTools for preprocessing VCF file before the SNPEff data input?
• What Galaxy tools can preprocess VCF file before running the SNPEff annotation process?
  What Galaxy tools can preprocess VCF file before running the SNPEff annotation process? We have t...
• How to preprocess .fasta genome reference, .gff3 annotation file and the input VCF to escape from the Frame Zero error with SNPEff?
  How to preprocess .fasta genome reference, .gff3 annotation file and the input VCF to escape from...
• Running SnpEff on Galaxy
  Hello, I would like to annotate a .vcf file and also summarize possible effects variants can hav...
• Variant Annotation In Galaxy
  Hallo Galaxy users, I would like to annotate variants (in vcf file) found in my bacterial genome...
• How to normalize and decompose a VCF file using only Galaxy-available tools?
  How to normalize and decompose a VCF file using only Galaxy-available tools? The goal is to make ...
• Filtering for the frequency of ALT alleles
  Hi, When running CloudMap unmapped mutant workflow, I get a SnpEff file with Homozygous or heter...
• Filtering Variants using Snpsift filter and SnpEff
  Hi, I have a bunch of variants in .VCF file which I got through the unified genotyper tool. Now ...
• Is it possible, implementable, using current Galaxy tools to compare one new input VCF file against a 1000 of preloaded and generate a similarity report?
  Is it possible, implementable, using current Galaxy tools to compare one new input VCF file (fr...
• Snpeff 2.0.2 Wrapper Problem / Partial Fix
  Hi Pablo, We recently installed 2.0.2 SnpEff at the UAB Galaxy instance (thanks for adding those...
• How to annotate 500 vcf files using SNPEff or smth else and put every separate result in a folder with the name of the SRA identifier?
  How to annotate 500 vcf files using SNPEff or smth else and put every separate result in a folder...
• Database Of C_Briggsae_Ws230 For Snpeff
  Hi, Using SnpEff in the Galaxy main server, I need the Caenorhabditis briggsae genome as a refer...
• November 24, 2010 Galaxy Development News Brief
  November 24, 2010 Galaxy Development News Brief Here are the highlights of the following upgrade...
• Need help with "SnpEff" tool
  Hi there, I'm trying to run SnpEff on Galaxy, but the only Genome that it gives me access to is ...