View Single Post
Old 07-13-2010, 08:17 AM   #2
Senior Member
Location: Birmingham, UK

Join Date: Jul 2009
Posts: 356

Isn't BWA called as follows:

bwa aln <database> <FASTQ file>

a la

Edit: Actually I can see you did that already. Did you run bwa index on the mouse database first?
nickloman is offline   Reply With Quote