I would need to align sequences without any reference database (I have a database, but it is not aligned yet). My idea was to find some software that allows me to align this .fasta file and use it as an aligned database for future needs.
Asking, I was informed about BWA-SW.
My questions are:
-Is it the perfect program for my needs?
-In the indexing step (to create an index with my database), has the input database to be pre-aligned or the algorithm aligns it while indexing?
Thanks a lot once again.
Asking, I was informed about BWA-SW.
My questions are:
-Is it the perfect program for my needs?
-In the indexing step (to create an index with my database), has the input database to be pre-aligned or the algorithm aligns it while indexing?
Thanks a lot once again.
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