Question: What are best Long read simulator generating Oxford Nanopore Reads
1
gravatar for Ashi
3 months ago by
Ashi10
United States
Ashi10 wrote:

Hi,

I am using Badreads for simulating Oxford Nanopore long reads and then used BWA for mapping the short reads to these simulated long reads which acts as my reference in BWA. I wanted to change my error rate for simulating the long reads (like 5%, 10%, 15% and 20%) and then how the mapping is effected due to this change in error rate. But in Badreads tool they have an option like error_model as "Pacbio" or "oxford" which have already default values.

So are there any other tool by which I can generate oxford nanopore long reads where I can give the error rates?

Thank you

ADD COMMENTlink written 3 months ago by Ashi10

Maybe what you could do is take a Badreads error model (e.g. nanopore) and rescale the numbers to your liking. Other tools are mentioned in their comparison.

ADD REPLYlink written 3 months ago by user_without_id140
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