comparison admixture/admixture.xml @ 0:3e19d0dfcf3e draft

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0:3e19d0dfcf3e

<tool id="admixture" name="Admixture" version="1.23">
	<description>a population structure from large SNP genotype datasets</description>
	<requirements>
		<requirement type="package" version="1.07">plink</requirement>
		<requirement type="package" version="1.23">admixture</requirement>
	</requirements>
	<command interpreter="bash">./admixture.sh $input $outputs $logs $best_k_output $best_k_logfile $kmin $kmax
    </command>
	<inputs>
		<param format="txt" name="input" type="data" label="Allelic file in Hapmap format" help="Allelic file in Hapmap format"/>
		<param type="text" name="kmin" label="K min" value="1"/>
		<param type="text" name="kmax" label="K max" value="5"/>
	</inputs>
	<outputs>
		<data format="txt" name="best_k_output" label="Best K Output"/>
		<data format="txt" name="best_k_logfile" label="Best K Logfile"/>
		<data format="txt" name="outputs" label="All Outputs"/>
		<data format="txt" name="logs" label="All Logs"/>
	</outputs>
	<help>
	

.. class:: infomark

**Program encapsulated in Galaxy by Southgreen**

.. class:: infomark

**Admixture version 1.23**

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==============
 Please cite: 
==============

"Fast model-based estimation of ancestry in unrelated individuals.", **D.H. Alexander, J. Novembre, and K. Lange.**, Genome Research, 19:1655{1664, 2009.

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===========
 Overview:
===========

ADMIXTURE is a program for estimating ancestry in a model-based manner from large autosomal SNP genotype datasets, where the individuals are unrelated (for example, the individuals in a case-control association study).

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For further informations, please visite the Admixture_ website.


.. _Admixture: http://www.genetics.ucla.edu/software/admixture/index.html
	</help>

</tool>