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Detecting sample swaps in diverse NGS data types using linkage disequilibrium
2020
Nature Communications
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As the number of genomics datasets grows rapidly, sample mislabeling has become a high stakes issue. We present CrosscheckFingerprints (Crosscheck), a tool for quantifying sample-relatedness and detecting incorrectly paired sequencing datasets from different donors. Crosscheck outperforms similar methods and is effective even when data are sparse or from different assays. Application of Crosscheck to 8851 ENCODE ChIP-, RNA-, and DNase-seq datasets enabled us to identify and correct dozens of
doi:10.1038/s41467-020-17453-5
pmid:32728101
fatcat:hi7hm4eijnerpiueap5ayz2bbi