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• 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...
• GEMNI doesn't recognize hg19 VCF file!
  I am trying to import my hg19 variant call file, but on GEMNI tab, it appears it doesn't recogniz...
• Mpile up output
  Hi  I am using Mpileup using SAM tools version 1.2+htslib-1.2.1 to generate variants. The tool w...
• Filtering A Vcf File
  I’m using a local instance of Galaxy. I’d like to filter a VCF file for SNPs that have passed fi...
• Filtering on tabular dataset from vcf
  Hello, I tab delimited a vcf file so that I could filter on the 'type' information, which was in...
• Cloud tab not on galaxy.org when logged in?
  I need to create my cluster on galaxy.org but no cloud tab there on my dashboard. How to solve th...
• Bcf To Vcf
  I wasw wondering if there is any option in Glaxy to convert bcf format to vcf format? Thanks Ka...
• VCF files not recognised by Gemini
  I uploaded few VCF files (VCF 4.1) generated by Illumina MiSeq to Galaxy. Although Galaxy recogni...
• dna vcf file
  I was just wondering if anyone could help me with my vcf file. I would appreciate it. Thanks
• No tab named cloud on my version of galaxy
  I have no tab "cloud" on my account in order to login to cloud launch of galaxy at AWS. How can I...
• Error with galaxy tools
  Hello Thanks for all your replies, they have helped me resolve issues earlier. I want to share ...
• Need help with "Count intervals in one file overlapping intervals in another file" tool
  Hi, I'm using Galaxy public on a windows computer. The 'Count intervals in one file overlapping ...
• fastq to vcf conversion
  Hello, I need to convert fastq to vcf format. Can someone let me know how to do it. regards Preen...
• How to intersect vcf files for commonly mutated genes only (not the exact mutation)
  Hi all, I intersected two vcf files using vcf-vcf intersect on usegalaxy.org and I realized that...
• Loss of original VCF file; therefore in Galaxy, can I use VCF manipulation on an excel file (originally converted from VCF format)
  I have inherited a project where the original VCF files were lost. I have the excel files derived...