Assessing the performance of qpAdm: a statistical tool for studying population admixture. Issue 4 (8th January 2021)
- Record Type:
- Journal Article
- Title:
- Assessing the performance of qpAdm: a statistical tool for studying population admixture. Issue 4 (8th January 2021)
- Main Title:
- Assessing the performance of qpAdm: a statistical tool for studying population admixture
- Authors:
- Harney, Éadaoin
Patterson, Nick
Reich, David
Wakeley, John - Editors:
- Novembre, J
- Abstract:
- Abstract: qpAdm is a statistical tool for studying the ancestry of populations with histories that involve admixture between two or more source populations. Using qpAdm, it is possible to identify plausible models of admixture that fit the population history of a group of interest and to calculate the relative proportion of ancestry that can be ascribed to each source population in the model. Although qpAdm is widely used in studies of population history of human (and nonhuman) groups, relatively little has been done to assess its performance. We performed a simulation study to assess the behavior of qpAdm under various scenarios in order to identify areas of potential weakness and establish recommended best practices for use. We find that qpAdm is a robust tool that yields accurate results in many cases, including when data coverage is low, there are high rates of missing data or ancient DNA damage, or when diploid calls cannot be made. However, we caution against co-analyzing ancient and present-day data, the inclusion of an extremely large number of reference populations in a single model, and analyzing population histories involving extended periods of gene flow. We provide a user guide suggesting best practices for the use of qpAdm.
- Is Part Of:
- Genetics. Volume 217:Issue 4(2021)
- Journal:
- Genetics
- Issue:
- Volume 217:Issue 4(2021)
- Issue Display:
- Volume 217, Issue 4 (2021)
- Year:
- 2021
- Volume:
- 217
- Issue:
- 4
- Issue Sort Value:
- 2021-0217-0004-0000
- Page Start:
- Page End:
- Publication Date:
- 2021-01-08
- Subjects:
- qpAdm -- AdmixTools -- admixture -- simulation
Genetics -- Periodicals
576.5 - Journal URLs:
- http://www.oxfordjournals.org/ ↗
- DOI:
- 10.1093/genetics/iyaa045 ↗
- Languages:
- English
- ISSNs:
- 0016-6731
- Deposit Type:
- Legaldeposit
- View Content:
- Available online (eLD content is only available in our Reading Rooms) ↗
- Physical Locations:
- British Library DSC - BLDSS-3PM
British Library HMNTS - ELD Digital store - Ingest File:
- 22501.xml