The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
NgsRelate: a software tool for estimating pairwise relatedness from next-generation sequencing data
Open accessAbstract
Motivation: Pairwise relatedness estimation is important in many contexts such as disease mapping and population genetics. However, all existing estimation methods are based on called genotypes, which is not ideal for next-generation sequencing (NGS) data of low depth from which genotypes cannot be called with high certainty. Results: We present a software tool, NgsRelate, for estimating pairwise relatedness from NGS data. It provides maximum likelihood estimates that are based on genotype likelihoods instead of genotypes and thereby takes the inherent uncertainty of the genotypes into account. Using both simulated and real data, we show that NgsRelate provides markedly better estimates for low-depth NGS data than two state-of-the-art genotype-based methods. Availability: NgsRelate is implemented in C++ and is available under the GNU license at www.popgen.dk/software. Contact: ida@binf.ku.dk Supplementary information: Supplementary data are available at Bioinformatics online.
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Cites
An integrated map of genetic variation from 1,092 human genomes
The 1000 Genomes Project Consortium (2012) · Nature · doi:10.1038/nature11632 · Cited by 7,711
Integrating common and rare genetic variation in diverse human populations
The International HapMap 3 Consortium (2010) · Nature · doi:10.1038/nature09298 · Cited by 3,026
ANGSD: Analysis of Next Generation Sequencing Data
Korneliussen, T. S., Albrechtsen, A., & Nielsen, R. (2014) · BMC Bioinformatics · doi:10.1186/s12859-014-0356-4 · Cited by 2,982
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Cited by
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Monroy Kuhn, J. M., Jakobsson, M., & Günther, T. (2018) · PLOS ONE · doi:10.1371/journal.pone.0195491 · Cited by 330
A beginner's guide to low‐coverage whole genome sequencing for population genomics
Lou, R. N., Jacobs, A., Wilder, A. P., & Therkildsen, N. O. (2021) · Molecular Ecology · doi:10.1111/mec.16077 · Cited by 334
Terminal Pleistocene Alaskan genome reveals first founding population of Native Americans
Moreno-Mayar, J. V., Potter, B. A., Vinner, L., Steinrücken, M., Rasmussen, S., Terhorst, J., Kamm, J. A., Albrechtsen, A., Malaspinas, A.-S., Sikora, M., et al. (2018) · Nature · doi:10.1038/nature25173 · Cited by 316
Ancient genomes show social and reproductive behavior of early Upper Paleolithic foragers
Sikora, M., Seguin-Orlando, A., Sousa, V. C., Albrechtsen, A., Korneliussen, T., Ko, A., Rasmussen, S., Dupanloup, I., Nigst, P. R., Bosch, M. D., et al. (2017) · Science · doi:10.1126/science.aao1807 · Cited by 312
Self-citationAncient genomes revisit the ancestry of domestic and Przewalski’s horses
Gaunitz, C., Fages, A., Hanghøj, K., Albrechtsen, A., Khan, N., Schubert, M., Seguin-Orlando, A., Owens, I. J., Felkel, S., Bignon-Lau, O., et al. (2018) · Science · doi:10.1126/science.aao3297 · Cited by 298
Metadata
- Authors
- Korneliussen, T. S., & Moltke, I.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2015-08-30
- Volume
- 31
- Issue
- 24
- Pages
- 4009-4011
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2115388502
- Cited by
- 185
- References
- 3
- FWCI
- 3.70
- Type
- journal article
- Language
- en
- Open access
- hybrid
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