How to merge sequences in a BAM file to one sequence?

Question

[rus2dil]

I have an aligned BAM file and I need to merge all the sequences inside to one sequence. How should I do it? in Galaxy?

[Devon Ryan]

You want the consensus sequence, yes?

[rus2dil]

Yes, that's right. I am new to this

Answer 1

[Devon Ryan]

Please see any of the following posts:

• Ngs Question ~ Consensus
• Generate consensus from BAM file
• How To Extract Consensus Sequence Of Mapped Regions From A Bam File?

There are actually a lot of threads like this, use the search function to find more.