Question: If you only have diploid reference genome, how can you properly assemble a haploid genome?
gravatar for Hranjeev
9 months ago by
Hranjeev1.4k wrote:

Can I not assemble a haploid genome using a diploid as a reference. Should I or should I not?

Is it acceptable to perform mapping based assembly of a haploid using the diploid as reference? Instead, do you start assembling using a de novo strategy?

ADD COMMENTlink modified 8 months ago • written 9 months ago by Hranjeev1.4k

No lo haga compa ๏̯͡๏ . It is a very confusing.. question... I think you have to understand what exactly is the meaning of diploid and haploid genome and what is its function.

ADD REPLYlink written 9 months ago by Buffo1.2k

edited for clarity.

ADD REPLYlink written 8 months ago by Hranjeev1.4k

To start, the reference genome is haploid. You align/map reads to your reference genome. The ploidy doesn't matter while mapping but does matter when you are calling variants, for example.

ADD REPLYlink written 8 months ago by WouterDeCoster32k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1260 users visited in the last hour