Difference between revisions of "Minimac4"

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'''Minimac4 ''' is a latest version in the series of genotype imputation software - preceded by [[Minimac3|Minimac3]] (2015), [[Minimac2|Minimac2]] (2014), [[Minimac|minimac]] (2012) and [[MaCH|MaCH]] (2010). '''Minimac4''' is a lower memory and more computationally efficient implementation of the original algorithms with negligible fall in imputation quality.
 
'''Minimac4 ''' is a latest version in the series of genotype imputation software - preceded by [[Minimac3|Minimac3]] (2015), [[Minimac2|Minimac2]] (2014), [[Minimac|minimac]] (2012) and [[MaCH|MaCH]] (2010). '''Minimac4''' is a lower memory and more computationally efficient implementation of the original algorithms with negligible fall in imputation quality.
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The Minimac3 mailing list has been renamed as the Minimac4 mailing list. If you were already a member, no need to re-join. If not, please join our [https://groups.google.com/forum/embed/?place=forum/minimac4-help&umich.edu| mailing list] to get updates about future releases or report possible bugs or email them to  [mailto:sayantan@umich.edu Sayantan Das].'''
  
 
= Download =
 
= Download =
  
'''Minimac4 ''' is currently available for testing purposes only (while we still run more tests and wait on feedback about potential bugs). Commonly used reference panels in <font face=Courier>M3VCF</font> format are available for download in [[#Reference Panels for Download | Reference Panels]].  
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'''Minimac4 ''' is currently available for testing purposes only (while we still run more tests and wait on feedback about potential bugs). '''Cloning from GitHub is recommened so that updates can be easily pulled back !!!''' Commonly used reference panels in <font face=Courier>M3VCF</font> format are available for download in [[#Reference Panels for Download | Reference Panels]].  
 
 
The Minimac3 mailing list has been renamed as the Minimac4 mailing list. If you were already a member, no need to re-join. If not, please join our [https://groups.google.com/forum/embed/?place=forum/minimac4-help&umich.edu| mailing list] to get updates about future releases or report possible bugs or email them to  [mailto:sayantan@umich.edu Sayantan Das].'''
 
  
'''VERSION: 1.0.1 !!! (Updated 12.1.2016) !!!'''
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'''VERSION: 1.0.2 !!! (Updated 6.29.2017) !!!'''
  
'''Github Repo:''' Users can clone from github repository as well : [https://github.com/Santy-8128/Minimac4 Minimac4 Github]  
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'''Github Repo:''' : [https://github.com/Santy-8128/Minimac4 Minimac4 Github]  
  
'''Cloning from GitHub is recommened so that updates can be easily pulled back !!!'''
 
  
 
= Reference Panels for Download =  
 
= Reference Panels for Download =  

Revision as of 21:36, 29 June 2017

Introduction

Minimac4 is a latest version in the series of genotype imputation software - preceded by Minimac3 (2015), Minimac2 (2014), minimac (2012) and MaCH (2010). Minimac4 is a lower memory and more computationally efficient implementation of the original algorithms with negligible fall in imputation quality.


The Minimac3 mailing list has been renamed as the Minimac4 mailing list. If you were already a member, no need to re-join. If not, please join our mailing list to get updates about future releases or report possible bugs or email them to Sayantan Das.

Download

Minimac4 is currently available for testing purposes only (while we still run more tests and wait on feedback about potential bugs). Cloning from GitHub is recommened so that updates can be easily pulled back !!! Commonly used reference panels in M3VCF format are available for download in Reference Panels.

VERSION: 1.0.2 !!! (Updated 6.29.2017) !!!

Github Repo: : Minimac4 Github


Reference Panels for Download

Some commonly used reference panels are available for download here:

Reference Panel Number
of Samples
File Format Parameter
Estimates
Available
Chromosomes Link
1000 Genomes

Phase 3
(version 5)

2,504 VCF - 1-22,X Download
M3VCF YES 1-22,X Download
NO 1-22,X Download
VCF,M3VCF YES X Download
1000 Genomes

Phase 1
(version 3)

1,092 VCF - 1-22,X Download
M3VCF YES 1-22,X Download
NO 1-22,X Download
VCF,M3VCF YES X Download