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bammds: a tool for assessing the ancestry of low-depth whole-genome data using multidimensional scaling (MDS).

Bioinformatics (Oxford, England) - 15 Oct 2014

Malaspinas Anna-Sapfo, Tange Ole, Moreno-Mayar José Víctor, Rasmussen Morten, DeGiorgio Michael, Wang Yong, Valdiosera Cristina E, Politis Gustavo, Willerslev Eske, Nielsen Rasmus

Abstract excerpt

SUMMARY: We present bammds, a practical tool that allows visualization of samples sequenced by second-generation sequencing when compared with a reference panel of individuals (usually genotypes) using a multidimensional scaling algorithm. Our tool is aimed at determining the ancestry of unknown samples-typical of ancient DNA data-particularly when only low amounts of data are available for those samples....

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PMID: 24974206
DOI: 10.1093/bioinformatics/btu410
PMCID: PMC4184259

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