https://github.com/edawson/ref_vcf_builder

A little bit of BASH to create a single standard reference VCF from several smaller ones.
https://github.com/edawson/ref_vcf_builder

Last synced: about 2 months ago
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A little bit of BASH to create a single standard reference VCF from several smaller ones.

• Host: GitHub
• URL: https://github.com/edawson/ref_vcf_builder
• Owner: edawson
• Created: 2015-03-18T20:02:32.000Z (almost 10 years ago)
• Default Branch: master
• Last Pushed: 2015-04-27T18:02:43.000Z (over 9 years ago)
• Last Synced: 2023-04-04T14:14:21.844Z (almost 2 years ago)
• Language: C
• Homepage:
• Size: 33 MB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.mkd

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README

        
Reference VCF Builder

---------------------

Eric T Dawson

Texas Advanced Computing Center

### What is it?

A small package that takes a link to reference VCF files for an organism,

a link to reference genome in 2bit format, and a basename for output and returns

a single combined reference VCF. It uses AXEL to accelerate downloads, performs

basic format checking, and cleans up after itself. It has been tested on the

equCab2 (horse) reference genome and callset.

### Usage:

```./make_dbsnp.sh   ```

### Getting help

Contact Eric Dawson or Dr. James Carson for help:  

eric at tacc.utexas.edu  

jcarsontacc.utexas.edu