Difference between revisions of "DosageConvertor"
From Genome Analysis Wiki
Jump to navigationJump to searchSanty.8128 (talk | contribs) |
Santy.8128 (talk | contribs) |
||
| Line 24: | Line 24: | ||
| Binary Executable{{dagger|alt=footnote}} <sup>*</sup> | | Binary Executable{{dagger|alt=footnote}} <sup>*</sup> | ||
| | | | ||
| − | [ftp://share.sph.umich.edu/minimac3/DosageConvertor/ | + | [ftp://share.sph.umich.edu/minimac3/DosageConvertor/DosageConvertorExecutable.tar.gz UNIX Users ] |
|} | |} | ||
Revision as of 18:32, 7 June 2016
- Download Release Version 1.0.3 !!! (Updated June 2016) !!!
Introduction
DosageConvertor is a C++ tool to convert dosage files (in VCF format) from Minimac3 to ther formats such as MaCH or PLINK.
Download
VERSION: 1.0.3 !!! (Updated 6.6.2016) !!!
Github Repo: Users can clone from github repository as well : Github
Cloning from GitHub is recommened so that updates can be easily pulled back !!!
| Description | Download Link |
|---|---|
| Source Files | |
| Binary ExecutableTemplate:Dagger * |
* Before running downloaded binary file run chmod +x DosageConvertor
Usage
Users should follow the following steps to compile DosageConvertor (if they downloaded the source files).
## EXTRACT M3VCFTOOLS AND COMPILE wget ftp://share.sph.umich.edu/minimac3/DosageConvertor/DosageConvertor.v1.0.3.tar.gz tar -xzvf DosageConvertor.v1.0.3.tar.gz cd DosageConvertor/ make
Usage: ./DosageConvertor --vcfDose TestDataImputedVCF.dose.vcf.gz
--info TestDataImputedVCF.info
--prefix OutputFilePrefix
--type plink OR mach // depending on output format
--format DS or GP // based on if you want to output
// dosage (DS) or genotype prob (GP)
--buffer 10000 // Number of Markers to import and
// print at a time (valid only for
// MaCH format)
--idDelimiter _ // Delimiter to Split VCF Sample ID into
// FID and IID for PLINK format
Contact
In case of any queries and bugs please contact Sayantan Das.
