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QC methods for next generation sequencing samples

I have been trying to find some papers that discuss quality control on Next generation sequencing samples. I know a lot of paper that discuss about QC on SNPs data, but none on QC of samples. I think P-link is one of the popular tools for this. Can someone please help me find the right papers and available tools used in QC of Samples.

ngs samples
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updated by WouterDeCoster WouterDeCoster • written by MAPK MAPK

Do you mean something like FastQC or some other sort of QC?

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written by Devon Ryan Devon Ryan

No, in terms of IBD and relatedness where we use these QC for correcting confounding biases, but not limited to or exactly of GWaaS studies

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written by MAPK MAPK

No, in terms of IBD and relatedness where we use these QC for correcting confounding biases, but not limited to or exactly of GWaaS studies

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written by MAPK MAPK

Ah, you might want to add that to your post and update the title.

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written by Devon Ryan Devon Ryan

1 answer

Relatedness can be studied using either ersa2.0 (http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1004144)(rather complicated) or something as simple as PCA.

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written by WouterDeCoster WouterDeCoster

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