Mercurial > repos > dereeper > sniplay3
comparison admixture/admixture.xml @ 21:50bd37c444ac draft
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author | dereeper |
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date | Mon, 23 Mar 2015 05:35:48 -0400 |
parents | fb274c4ae95a |
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20:13cff72ec2d3 | 21:50bd37c444ac |
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1 <tool id="admixture" name="Admixture" version="1.23"> | |
2 <description>a population structure from large SNP genotype datasets</description> | |
3 <requirements> | |
4 <requirement type="package" version="1.07">plink</requirement> | |
5 <requirement type="package" version="1.23">admixture</requirement> | |
6 </requirements> | |
7 <command interpreter="bash">./admixture.sh $input $outputs $logs $best_k_output $best_k_logfile $kmin $kmax | |
8 </command> | |
9 <inputs> | |
10 <param format="txt" name="input" type="data" label="Allelic file in Hapmap format" help="Allelic file in Hapmap format"/> | |
11 <param type="text" name="kmin" label="K min" value="1"/> | |
12 <param type="text" name="kmax" label="K max" value="5"/> | |
13 </inputs> | |
14 <outputs> | |
15 <data format="txt" name="best_k_output" label="Best K Output"/> | |
16 <data format="txt" name="best_k_logfile" label="Best K Logfile"/> | |
17 <data format="txt" name="outputs" label="All Outputs"/> | |
18 <data format="txt" name="logs" label="All Logs"/> | |
19 </outputs> | |
20 <help> | |
21 | |
22 | |
23 .. class:: infomark | |
24 | |
25 **Program encapsulated in Galaxy by Southgreen** | |
26 | |
27 .. class:: infomark | |
28 | |
29 **Admixture version 1.23** | |
30 | |
31 ----- | |
32 | |
33 ============== | |
34 Please cite: | |
35 ============== | |
36 | |
37 "Fast model-based estimation of ancestry in unrelated individuals.", **D.H. Alexander, J. Novembre, and K. Lange.**, Genome Research, 19:1655{1664, 2009. | |
38 | |
39 ----- | |
40 | |
41 =========== | |
42 Overview: | |
43 =========== | |
44 | |
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). | |
46 | |
47 ----- | |
48 | |
49 For further informations, please visite the Admixture_ website. | |
50 | |
51 | |
52 .. _Admixture: http://www.genetics.ucla.edu/software/admixture/index.html | |
53 </help> | |
54 | |
55 </tool> |