Similar posts • Search »

• Zygosity of mutations
  Hi all, While performing an analysis of NGS data I am not getting the column for mutation zygosit...
• Empty VCF file returned by ANNOVAR on Galaxy
  Hi, I have a VCF file which I need to annotate through ANNOVAR. But when I use the ANNOVAR tab p...
• How to use ANNOVAR with bacterial genome?
  I am trying to automatically generate annotations for a VCF file generated from the Mtb H37Rv gen...
• Annovar is returning a file with only headers
  Hi I am trying to do some variant analysis. I have mapped the reads using hg19 as reference thr...
• ANNOVAR annotate cuts short the VCF file ?
  I uploaded a standard VCF that contains 57651 lines (or 57471 lines variant data) and ran it with...
• Annovar hg38 databases
  Hey, I was doing a tutorial For SNP detection. I was using the freebayes and VCFfilter using hg1...
• What to write in "Using reference genome" and "Annotation Regions"sections ?
  Hey, I am trying to use GATK through Galaxy and trying to call variants from my vcf file. "Selec...
• Bacterial genome annotation using annovar
  Hello, am writing my own pipeline in python in order to annotate bacterial genome MTB, am new in ...
• Annovar not Running Annotation on VCF
  Dear Galaxy Team,   I am trying to run Annovar and I have successfully done so in the past.  An...
• Annovar Annotate VCF tool - empty tabular file
  Hello everyone, I am using a regular vcf file as input for the ANNOVAR Annotate VCF tool. Note t...
• ANNOVAR v0.2 on local server has no reference databases
  Hello, I recently used "ANNOVAR Annotate VCF with functional information using ANNOVAR (Galaxy V...
• Problem with Annotation Regions using ANNOVAR Annotate VCF
  Hello, I'd like to use ANNOVAR Annotate VCF via Galaxy Web (Galaxy Version 0.2) to annotate vari...
• Workflow reference genome
  Dear GALAXY team, In a workflow, is it possible to change the database type of an output file fr...
• ANNOVAR Annotate VCF tool not working
  Hi, I tried using the ANNOVAR annotate VCF tool and got the following output empty formatvcfdat...
• Need help with "ANNOVAR Annotate VCF" tool
  Hi!  I entered a vcf file into the annovar tool.  It looks like it ran and tells me then number o...
• No options available in "ANNOVAR annotate VCF" by devteam
  Hello everyone, I am trying to configure ANNOVAR (the one by the Devteam) in galaxy to set the d...
• ANNOVAR galaxy returning an empty file
  I am working through a project that requires me to Identify genes with polymorphic sites using AN...
• Variant Annotation In Galaxy
  Hallo Galaxy users, I would like to annotate variants (in vcf file) found in my bacterial genome...
• ANNOVAR Annotation VCF empty
  Hi all, I am trying to run ANNOVAR Annotation tool to remove known SNPs from my VCF file, howeve...
• Hello help for annovar..
  I need some help.. I have this . Using your resulting VCF determine 1) the number of single nucle...
• HOW can select MAF <0,01 in a VCF files without use ANNOVAR?
  HOW can select variations with MAF &lt;0,01 in a VCF files without use ANNOVAR? I have problem wi...