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Falcon Unzip SNP Separation parameters #573

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AfterRain opened this issue Aug 25, 2017 · 0 comments
Open

Falcon Unzip SNP Separation parameters #573

AfterRain opened this issue Aug 25, 2017 · 0 comments

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@AfterRain
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Dear Developer,

I have achieved 50X Sequel Coverage. and run Falcon, Falcon-Unzip and Falcon-Unzip-Quiver.
It is successfully separated few genes, but few targeted genes are not successfully separated.

So, I checked alignment file and realized that actually all has SNP positions but It is not successfully separated for few genes. It looks depth subreads are around 1530 sub reads for unseparated contig. and 3050 sub reads from separated contig.

From this, I can think of the depth of subreads are an important factor to separate contig and create alternate contig.

Is it possible to change that kind of minimum depth subreads or percentage in the Unzip Program?

I'd like to understand more for unzip algorithm.

Thank you,

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