strip rows with N or H calls from a dir full of genotype CSV files

strip-N-H-calls.bash

#!/bin/bash

echo "input directory: $1"
echo "output directory: $2"

for i in `ls $1` ; do echo "striping N and H calls from: $i" && egrep -v '(,N,)|(,N$)|(,H,)|(,H$)|(,n,)|(,n$)|(,h,)|(,h$)' $1/$i > $2/$i; done