mbk0asis · December 27, 2016 06:47
diff --git a/findSNV.sh b/findSNV.sh
 #!/bin/bash

 cat $1 $2 | muscle |fasta_formatter | paste - - - - | cut -f 1,2,4 | sed 's/>M.//g' 
 cat $1 $2 | muscle -clw | grep "*" | sed 's/^ *//g;s/ /!/g' | tr '\n' ' ' | sed 's/ //g' | grep -bo "!" | tr '\n' ' '
 printf "\n"
	#!/bin/bash

	cat $1 $2 \| muscle \|fasta_formatter \| paste - - - - \| cut -f 1,2,4 \| sed 's/>M.//g'
	cat $1 $2 \| muscle -clw \| grep "" \| sed 's/^ //g;s/ /!/g' \| tr '\n' ' ' \| sed 's/ //g' \| grep -bo "!" \| tr '\n' ' '
	printf "\n"