Question

Does Anyone Know Of A Publication Reviewing Snp/Indel Finding Algorithms For Ngs Data?

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13.3 years ago

Travis ★ 2.8k

Hi all,

Is anyone aware of a good publication that reviews current methods for detecting SNPs/Indels from next gen sequencing data? I have done some searching but so far in vain. It would be great to get an overview of the various methods and their pros and cons.

Thanks in advance.

next-gen sequencing snp indel publication • 3.1k views

ADD COMMENT • link updated 12.7 years ago by Thomas ▴ 760 • written 13.3 years ago by Travis ★ 2.8k

Ram · Answer 1 · 2011-07-27

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13.3 years ago

Thomas ▴ 760

The following link is a very nice review of SNP calling from NGS.

enjoy

http://www.nature.com/nrg/journal/v12/n6/full/nrg2986.html

ADD COMMENT • link 13.3 years ago by Thomas ▴ 760

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Nice one - thanks!

ADD REPLY • link 13.3 years ago by Travis ★ 2.8k

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If you want details of the algorithms behind a specific tools keep an eye on: https://github.com/lh3/smtl-paper. That's the incoming samtools paper.As you know, one of the most used tools for, among other things, calling snps with nextgen data.

ADD REPLY • link updated 5.1 years ago by Ram 44k • written 13.3 years ago by Drio ▴ 920

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@drio - I think this paper is out now: http://www.ncbi.nlm.nih.gov/pubmed/21903627

ADD REPLY • link 12.7 years ago by Casey Bergman 18k