I have a Hi-seq Single end data and want to align it to a viral genome and have fasta file of viral genome. I have created index files out side Galaxy (I believe I cannot create index file with in Galaxy). The question which I have is:<br>
<br>There are various index files (v.fasta.amb; v.fasta.pac; v.fasta.rbwt; v.fasta.rpac; <a href="http://v.fasta.sa">v.fasta.sa</a>) should I be using all the these files as zip file for index file or one (which one?).<br>
<br><br>Thanks<br><br>Kanwar<br>