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1 <tool id="admixture" name="Admixture" version="1.23">
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2 <description>a population structure from large SNP genotype datasets</description>
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3 <requirements>
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4 <requirement type="package" version="1.07">plink</requirement>
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5 <requirement type="package" version="1.23">admixture</requirement>
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6 </requirements>
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7 <command interpreter="bash">./admixture.sh $input $outputs $logs $best_k_output $best_k_logfile $kmin $kmax
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8 </command>
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9 <inputs>
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10 <param format="txt" name="input" type="data" label="Allelic file in Hapmap format" help="Allelic file in Hapmap format"/>
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11 <param type="text" name="kmin" label="K min" value="1"/>
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12 <param type="text" name="kmax" label="K max" value="5"/>
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13 </inputs>
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14 <outputs>
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15 <data format="txt" name="best_k_output" label="Best K Output"/>
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16 <data format="txt" name="best_k_logfile" label="Best K Logfile"/>
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17 <data format="txt" name="outputs" label="All Outputs"/>
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18 <data format="txt" name="logs" label="All Logs"/>
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19 </outputs>
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20 <help>
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21
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22
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23 .. class:: infomark
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24
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25 **Program encapsulated in Galaxy by Southgreen**
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26
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27 .. class:: infomark
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28
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29 **Admixture version 1.23**
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30
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31 -----
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32
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33 ==============
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34 Please cite:
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35 ==============
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36
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37 "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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38
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39 -----
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40
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41 ===========
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42 Overview:
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43 ===========
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44
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45 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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46
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47 -----
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48
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49 For further informations, please visite the Admixture_ website.
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50
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51
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52 .. _Admixture: http://www.genetics.ucla.edu/software/admixture/index.html
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53 </help>
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54
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55 </tool>
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