view ped2bed/ped2bed.sh @ 3:345f88a8f483 draft

Uploaded
author dereeper
date Fri, 10 Jul 2015 10:38:43 -0400
parents 420b57c3c185
children
line wrap: on
line source

#!/bin/bash
ped=$1
map=$2
bed=$3
fam=$4
bim=$5
logs=$6

directory=`dirname $0`
mkdir tmpdir$$
cp -rf $ped tmpdir$$/input.ped
cp -rf $map tmpdir$$/input.map
 
plink --file tmpdir$$/input --out tmpdir$$/out --make-bed --noweb >>$logs 2>&1

mv tmpdir$$/out.bed $bed
mv tmpdir$$/out.fam $fam
mv tmpdir$$/out.bim $bim