Richards, A.; Kubatko, L. Site pattern probabilities under the multispecies coalescent and a relaxed molecular clock: theory and applications. (English) Zbl 1489.92109 J. Theor. Biol. 542, Article ID 111078, 13 p. (2022). MSC: 92D15 × Cite Format Result Cite Review PDF Full Text: DOI
Deng, Yun; Song, Yun S.; Nielsen, Rasmus The distribution of waiting distances in ancestral recombination graphs. (English) Zbl 1478.92132 Theor. Popul. Biol. 141, 34-43 (2021). MSC: 92D15 × Cite Format Result Cite Review PDF Full Text: DOI Link
Richards, Andrew; Kubatko, Laura Bayesian-weighted triplet and quartet methods for species tree inference. (English) Zbl 1470.92221 Bull. Math. Biol. 83, No. 9, Paper No. 93, 39 p. (2021). MSC: 92D15 92B10 × Cite Format Result Cite Review PDF Full Text: DOI arXiv
Kamm, Jack; Terhorst, Jonathan; Durbin, Richard; Song, Yun S. Efficiently inferring the demographic history of many populations with allele count data. (English) Zbl 1441.62919 J. Am. Stat. Assoc. 115, No. 531, 1472-1487 (2020). MSC: 62P25 92D25 × Cite Format Result Cite Review PDF Full Text: DOI OA License
Favaro, Stefano; Feng, Shui; Jenkins, Paul A. Bayesian nonparametric analysis of Kingman’s coalescent. (English. French summary) Zbl 1426.62315 Ann. Inst. Henri Poincaré, Probab. Stat. 55, No. 2, 1087-1115 (2019). MSC: 62P10 62G05 62C10 62M05 92D10 × Cite Format Result Cite Review PDF Full Text: DOI arXiv Euclid
Heine, K.; Beskos, A.; Jasra, A.; Balding, D.; De Iorio, M. Bridging trees for posterior inference on ancestral recombination graphs. (English) Zbl 1425.92002 Proc. R. Soc. Lond., A, Math. Phys. Eng. Sci. 474, No. 2220, Article ID 20180568, 20 p. (2018). MSC: 92-04 92D15 92D20 × Cite Format Result Cite Review PDF Full Text: DOI arXiv Link
Griffiths, Robert C.; Tavaré, Simon Ancestral inference from haplotypes and mutations. (English) Zbl 1405.92174 Theor. Popul. Biol. 122, 12-21 (2018). MSC: 92D10 92D20 92D15 × Cite Format Result Cite Review PDF Full Text: DOI arXiv
Wilton, Peter R.; Baduel, Pierre; Landon, Matthieu M.; Wakeley, John Population structure and coalescence in pedigrees: comparisons to the structured coalescent and a framework for inference. (English) Zbl 1381.92060 Theor. Popul. Biol. 115, 1-12 (2017). MSC: 92D10 92D15 × Cite Format Result Cite Review PDF Full Text: DOI DOI OA License
Parag, Kris V.; Pybus, Oliver G. Optimal point process filtering and estimation of the coalescent process. (English) Zbl 1370.92094 J. Theor. Biol. 421, 153-167 (2017). MSC: 92D10 92D15 62P10 62F15 62M20 × Cite Format Result Cite Review PDF Full Text: DOI Link
Merle, C.; Leblois, R.; Rousset, F.; Pudlo, P. Resampling: an improvement of importance sampling in varying population size models. (English) Zbl 1369.92004 Theor. Popul. Biol. 114, 70-87 (2017). MSC: 92B15 92-08 62P10 62D05 × Cite Format Result Cite Review PDF Full Text: DOI arXiv HAL
Jones, Graham Algorithmic improvements to species delimitation and phylogeny estimation under the multispecies coalescent. (English) Zbl 1357.92057 J. Math. Biol. 74, No. 1-2, 447-467 (2017). MSC: 92D15 92D10 62P10 62F15 × Cite Format Result Cite Review PDF Full Text: DOI DOI OA License
Crane, Harry The ubiquitous Ewens sampling formula. (English) Zbl 1442.60010 Stat. Sci. 31, No. 1, 1-19 (2016). MSC: 60C05 60G09 60G57 62G05 62F15 62P10 92D15 × Cite Format Result Cite Review PDF Full Text: DOI Euclid
Guindon, Stéphane; Guo, Hongbin; Welch, David Demographic inference under the coalescent in a spatial continuum. (English) Zbl 1366.92105 Theor. Popul. Biol. 111, 43-50 (2016). MSC: 92D25 62P10 × Cite Format Result Cite Review PDF Full Text: DOI DOI OA License
Thompson, Katherine L.; Linnen, Catherine R.; Kubatko, Laura Tree-based quantitative trait mapping in the presence of external covariates. (English) Zbl 1360.92015 Stat. Appl. Genet. Mol. Biol. 15, No. 6, 473-490 (2016). MSC: 92B15 62P10 62F15 × Cite Format Result Cite Review PDF Full Text: DOI
Sainudiin, Raazesh; Stadler, Tanja; Véber, Amandine Finding the best resolution for the Kingman-Tajima coalescent: theory and applications. (English) Zbl 1342.92144 J. Math. Biol. 70, No. 6, 1207-1247 (2015). MSC: 92D15 92D20 60J10 60J27 × Cite Format Result Cite Review PDF Full Text: DOI
Sargsyan, Ori An analytical framework in the general coalescent tree setting for analyzing polymorphisms created by two mutations. (English) Zbl 1345.92097 J. Math. Biol. 70, No. 4, 913-956 (2015). MSC: 92D10 92D15 62P10 62F15 × Cite Format Result Cite Review PDF Full Text: DOI
Palacios, Julia A.; Minin, Vladimir N. Gaussian process-based Bayesian nonparametric inference of population size trajectories from gene genealogies. (English) Zbl 1274.62852 Biometrics 69, No. 1, 8-18 (2013). MSC: 62P10 92D25 62G99 62G05 × Cite Format Result Cite Review PDF Full Text: DOI arXiv
Chen, Hua The joint allele frequency spectrum of multiple populations: a coalescent theory approach. (English) Zbl 1322.92044 Theor. Popul. Biol. 81, No. 2, 179-195 (2012). MSC: 92D15 92D10 × Cite Format Result Cite Review PDF Full Text: DOI
Eldon, Bjarki Estimation of parameters in large offspring number models and ratios of coalescence times. (English) Zbl 1403.92137 Theor. Popul. Biol. 80, No. 1, 16-28 (2011). MSC: 92D10 92D15 62P10 × Cite Format Result Cite Review PDF Full Text: DOI
Hobolth, Asger; Uyenoyama, Marcy K.; Wiuf, Carsten Importance sampling for the infinite sites model. (English) Zbl 1276.62074 Stat. Appl. Genet. Mol. Biol. 7, No. 1, Article No. 32, 24 p. (2008). MSC: 62P10 92D10 × Cite Format Result Cite Review PDF Full Text: DOI Link
Birkner, Matthias; Blath, Jochen Computing likelihoods for coalescents with multiple collisions in the infinitely many sites model. (English) Zbl 1274.92039 J. Math. Biol. 57, No. 3, 435-465 (2008). MSC: 92D15 60G09 60G52 60J75 60J85 × Cite Format Result Cite Review PDF Full Text: DOI arXiv
Chen, Yuguo; Xie, Junyi; Liu, Jun S. Stopping-time resampling for sequential Monte Carlo methods. (English) Zbl 1069.62089 J. R. Stat. Soc., Ser. B, Stat. Methodol. 67, No. 2, 199-217 (2005). MSC: 62P10 62L99 65C05 92D10 65C60 × Cite Format Result Cite Review PDF Full Text: DOI
Slade, Paul F. Conditional ancestral times and related properties of an extant mutant at a locus A given the number of segregating sites observed at a linked locus B. (English) Zbl 0990.92026 J. Math. Biol. 44, No. 5, 427-449 (2002). MSC: 92D10 92D15 60G35 × Cite Format Result Cite Review PDF Full Text: DOI
Stephens, Matthew Times on trees, and the age of an allele. (English) Zbl 0974.92023 Theor. Popul. Biol. 57, No. 2, 109-119 (2000). MSC: 92D15 × Cite Format Result Cite Review PDF Full Text: DOI Link
Bahlo, M.; Griffiths, R. C. Inference from gene trees in a subdivided population. (English) Zbl 0984.92020 Theor. Popul. Biol. 57, No. 2, 79-95 (2000). MSC: 92D15 92-08 × Cite Format Result Cite Review PDF Full Text: DOI
Stephens, Matthew; Donnelly, Peter Inference in molecular population genetics. (With discussion). (English) Zbl 0962.62107 J. R. Stat. Soc., Ser. B, Stat. Methodol. 62, No. 4, 605-655 (2000). MSC: 62P10 92D10 65C40 × Cite Format Result Cite Review PDF Full Text: DOI
Griffiths, R. C.; Tavaré, Simon The ages of mutations in gene trees. (English) Zbl 0948.92016 Ann. Appl. Probab. 9, No. 3, 567-590 (1999). MSC: 92D15 60J70 92D10 62M05 92D20 65C05 × Cite Format Result Cite Review PDF Full Text: DOI
Griffiths, R. C. The time to the ancestor along sequences with recombination. (English) Zbl 0933.92028 Theor. Popul. Biol. 55, No. 2, 137-144 (1999). MSC: 92D15 92D20 × Cite Format Result Cite Review PDF Full Text: DOI
Griffiths, R. C.; Tavaré, S. Monte Carlo inference methods in population genetics. (English) Zbl 0853.92014 Math. Comput. Modelling 23, No. 8-9, 141-158 (1996). MSC: 92D15 92D20 92D10 62P10 65C05 × Cite Format Result Cite Review PDF Full Text: DOI