[EMBOSS] Does emboss have a handy way for mutate a protein sequence

[Zhiqiang Ye]

hi, Guy Bottu

    Thank you. But I have to do a batch of these subsitituion, so a
command line solution will be better.  I write an ugly shell script to
do this according to David Bauer.

#!/bin/sh

mutation=$2;
WT=${mutation:0:1};
POS=${mutation:1:${#mutation}-2};
MT=${mutation: -1}
POS2=`expr $POS - 1`

cat $1 | cutseq -filter -from $POS -to $POS | pasteseq -filter -pos
$POS2 -bs asis:$MT | descseq -filter -append -desc " (mutant:
$mutation )"



With this script mutate.sh in my ~/bin, I can type this:
mutate.sh foo.fasta A2L

Best

--
Zhiqiang Ye