Discover MakerZone

MATLAB and Simulink resources for Arduino, LEGO, and Raspberry Pi

Learn more

Discover what MATLAB® can do for your career.

Opportunities for recent engineering grads.

Apply Today

New to MATLAB?

Method to include insertions in compact alignment from BioMap object?

Asked by Turner

Turner (view profile)

on 25 May 2013

Hi all,

I'm working with a BioMap object containing 50bp sequencing reads from a BAM file. My goal is to retrieve a full genome sequence from the BioMap. So far, I know how to use getCompactAlignment to get a memory-friendly version of an alignment that can be converted into a consensus sequence. I've mastered how to handle deletions, but getCompactAlignment does not account for insertions, and actually removes them from the alignment. Is there another method to generate a compact alignment or direct consensus sequence from a BioMap that includes insertions?



Turner (view profile)


0 Answers

Contact us