Mercurial > repos > dereeper > beagle
comparison execute_beagle.sh @ 0:a929ef8dea25 draft default tip
planemo upload commit 11382afe87364aaafb19973470d5066229a6e34f
author | dereeper |
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date | Tue, 14 Aug 2018 07:59:19 -0400 |
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-1:000000000000 | 0:a929ef8dea25 |
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1 #!/bin/bash | |
2 | |
3 | |
4 vcf_input=$1 | |
5 phase=$2 | |
6 impute=$3 | |
7 out_prefix="out" | |
8 | |
9 mkdir tmpdir$$ | |
10 | |
11 cp -rf $vcf_input tmpdir$$/input.vcf | |
12 | |
13 beagle gt=$vcf_input phase-its=$phase impute-its=$impute out=$out_prefix | |
14 | |
15 gunzip $out_prefix.vcf.gz | |
16 | |
17 rm -rf tmpdir$$ | |
18 |