Similar posts • Search »

• 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?
• Running SnpEff on Galaxy
  Hello, I would like to annotate a .vcf file and also summarize possible effects variants can hav...
• 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...
• 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...
• What free Galaxy instance has a working SNPEff and other annotation and VCF processing tools to process a human genome data?
  What free Galaxy instance has a working SNPEff and other annotation and VCF processing tools to p...
• 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 ...
• Need help with "SnpEff" tool
  hi i am trying to use snpeff on galaxy...i give vcf file but i dnt know in genome portion what i ...
• Is there any wrapper for the VT Tools Decompose function, which is required to preprocess VCF file before the SNPEff`s input?
  Is there any wrapper for the VT Tools Decompose function, which is required to preprocess VCF fil...
• 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 ...
• 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 ...
• Variant Annotation In Galaxy
  Hallo Galaxy users, I would like to annotate variants (in vcf file) found in my bacterial genome...
• Using Snpeff And Snpsift In Galaxy
  I have a VCF file and I want to filter it for nonsynonymous/ deletion/ insertion seq variations....
• How to fix SNPeff`s error "WARNING: All frames are zero! "?
  After execution of the job for processing of the normalized with VT Tools Pilon`s VCF file we h...
• What genome annotation software is available in Galaxy except SNPEff and ANNOVAR?
  What genome annotation software is available in Galaxy except SNPEff and ANNOVAR?
• Filtering for the frequency of ALT alleles
  Hi, When running CloudMap unmapped mutant workflow, I get a SnpEff file with Homozygous or heter...
• Zygosity of mutations
  Hi all, While performing an analysis of NGS data I am not getting the column for mutation zygosit...
• How to set up SNPEff jars and tools on the Galaxy cloud instance?
  On running various SNPEff tools we have got: Error: Unable to access jarfile /home/pcingola/too...