Difference between revisions of "AdmixTools"

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===Serial===
 
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* gcc/5.2.0
 
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==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
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{{#if: {{#var: exe}}|==Additional Information==
 
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WRITE_ADDITIONAL_INSTRUCTIONS_ON_RUNNING_THE_SOFTWARE_IF_NECESSARY
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The package contains 6 programs:
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*convertf: See README.CONVERTF for documentation of programs for converting file formats.
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*qp3Pop: See README.3PopTest for details of running f_3 test. This test can be used as a format test of admixture with 3 populations.
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*qpBound: See README.3PopTest for details of running qpBound. This test can be used for estimating bounds on the admixture proportions, given 3 populations (2 reference and one target).
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*qpDstat: See README.Dstatistics for details of running D-statistics. This is a formal test of admixture with 4 populations.
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*qpF4Ratio: See README.F4RatioTest for details of running F4 ratio estimation. This program computes the admixture proportion by taking the ratio of two f4 tests.
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*rolloff:  See README.ROLLOFF/ README.ROLLOFF_OUTPUT for details for running rolloff. This program can be used for dating admixture events.
  
 
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If you publish research that uses {{#var:app}} you have to cite it as follows:
 
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[http://genetics.med.harvard.edu/reich/Reich_Lab/Software_files/2012_Patterson_AncientAdmixture_Genetics.pdf N. Patterson et al. ''Genetics'', vol 192:'''1065–1093''']
  
 
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Latest revision as of 21:01, 6 December 2019

Description

AdmixTools website  

ADMIXTOOLS (Patterson et al. 2012) is a software package that supports formal tests of whether admixture occurred, and makes it possible to infer admixture proportions and dates.

Required Modules

Serial

  • gcc/5.2.0
  • AdmixTools




Citation

If you publish research that uses AdmixTools you have to cite it as follows:

N. Patterson et al. Genetics, vol 192:1065–1093