CP/NNLS, standing for "ChromoPainter (CP) non-negative least squares (NNLS)" is a statistical method used in genetics. "ChromoPainter" is the name of a tool for finding haplotypes in sequence data, in which each individual is "painted" as a combination of all other sequences. It is used in Principal Components Analysis (PCA) to create data summaries, or dating admixture events.[1][2] Non-negative least squares (NNLS) is a kind of regression analysis, which aims at finding the best possible correlation between a large set of dependent variables. It here used within the functionalities of ChromoPainter.

CP/NNLS is often used in conjunction with qpAdm.[3][4]

References

  1. ↑ Lawson, Daniel John; Hellenthal, Garrett; Myers, Simon; Falush, Daniel (January 2012). "Inference of population structure using dense haplotype data". PLOS Genetics. 8 (1): e1002453. doi:10.1371/journal.pgen.1002453. ISSN 1553-7404. PMC 3266881. PMID 22291602.
  2. ↑ Lawson, Daniel. "ChromoPainter". people.maths.bris.ac.uk.
  3. ↑ Järve, Mari; Saag, Lehti; Scheib, Christiana Lyn; Pathak, Ajai K.; Montinaro, Francesco; Pagani, Luca; Flores, Rodrigo; Guellil, Meriam; Saag, Lauri; Tambets, Kristiina; Kushniarevich, Alena; Solnik, Anu; Varul, Liivi; Zadnikov, Stanislav; Petrauskas, Oleg; Avramenko, Maryana; Magomedov, Boris; Didenko, Serghii; Toshev, Gennadi; Bruyako, Igor; Grechko, Denys; Okatenko, Vitalii; Gorbenko, Kyrylo; Smyrnov, Oleksandr; Heiko, Anatolii; Reida, Roman; Sapiehin, Serheii; Sirotin, Sergey; Tairov, Aleksandr; Beisenov, Arman; Starodubtsev, Maksim; Vasilev, Vitali; Nechvaloda, Alexei; Atabiev, Biyaslan; Litvinov, Sergey; Ekomasova, Natalia; Dzhaubermezov, Murat; Voroniatov, Sergey; Utevska, Olga; Shramko, Irina; Khusnutdinova, Elza; Metspalu, Mait; Savelev, Nikita; Kriiska, Aivar; Kivisild, Toomas; Villems, Richard (22 July 2019). "Shifts in the Genetic Landscape of the Western Eurasian Steppe Associated with the Beginning and End of the Scythian Dominance". Current Biology. 29 (14): 2430–2441.e10. doi:10.1016/j.cub.2019.06.019. ISSN 0960-9822. PMID 31303491.
  4. ↑ Saag, Lehti; Vasilyev, Sergey V.; Varul, Liivi; Kosorukova, Natalia V.; Gerasimov, Dmitri V.; Oshibkina, Svetlana V.; Griffith, Samuel J.; Solnik, Anu; Saag, Lauri; D’Atanasio, Eugenia; Metspalu, Ene; Reidla, Maere; Rootsi, Siiri; Kivisild, Toomas; Scheib, Christiana Lyn; Tambets, Kristiina; Kriiska, Aivar; Metspalu, Mait (3 July 2020). "Genetic ancestry changes in Stone to Bronze Age transition in the East European plain". Science Advances. 7 (4). doi:10.1101/2020.07.02.184507. PMC 7817100.
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