alexeid's library 108 articles Export

	On the determinants of population structure in antigenically diverse pathogens. [My Copy] Proceedings. Biological sciences / The Royal Society, Vol. 269, No. 1488. (7 February 2002), pp. 227-233. by M. G. Gomes, G. F. Medley, D. J. Nokes posted to epidemics epidemiological-model population-structure by alexeid on 2008-10-29 17:07:38 as
	GillespieSSA: Implementing the Gillespie Stochastic Simulation Algorithm in R [My Copy] Journal of Statistical Software, Vol. 25, No. 12. (1 February 2008), pp. 1-18. by Mario Pineda-Krch posted to epidemics gillespie-algorithm stochastic by alexeid on 2008-10-29 17:02:53 as along with 1 person dah
	Calibrating a coalescent simulation of human genome sequence variation [My Copy] Genome Research, Vol. 15, No. 11. (2005), pp. 1576-1583. by S. F. Schaffner, C. Foo, S. Gabriel, D. Reich, M. J. Daly, D. Altshuler posted to coalescent population-genetics by alexeid on 2008-10-29 16:55:14 as along with 1 person renewang
	The conditioned reconstructed process [My Copy] Journal of Theoretical Biology, Vol. 253, No. 4. (21 August 2008), pp. 769-778. by T. Gernhard posted to birth-death likelihood species-tree by alexeid on 2008-10-29 16:50:25 as
	Bayesian selection of continuous-time Markov chain evolutionary models [My Copy] Molecular Biology and Evolution, Vol. 18 (2001), pp. 1001-1013. by M. A. Suchard, R. E. Weiss, J. S. Sinsheimer posted to ebsp-paper by alexeid on 2008-10-20 21:06:46 as
	Bayes factors [My Copy] Journal of the American Statistical Association, Vol. 90 (1995), pp. 773-795. by R. E. Kass, A. E. Raftery posted to ebsp-paper by alexeid on 2008-10-20 21:06:46 as
	Distinguishing Between Selective Sweeps and Demography Using DNA Polymorphism Data [My Copy] Genetics, Vol. 170 (2005), pp. 1401-1410. by J. D. Jensen, Y. Kim, V. B. Dumont, C. F. Aquadro, C. D. Bustamante posted to ebsp-paper by alexeid on 2008-10-20 21:06:46 as along with 1 person renewang
	Detecting a Local Signature of Genetic Hitchhiking Along a Recombining Chromosome [My Copy] Genetics, Vol. 160 (2002), pp. 765-777. by Stephan posted to ebsp-paper by alexeid on 2008-10-20 21:06:46 as
	Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations [My Copy] Genome Research, Vol. 15 (2005), pp. 790-799. by P. R. Haddrill, K. R. Thornton, B. Charlesworth, P. Andolfatto posted to ebsp-paper by alexeid on 2008-10-20 21:06:46 as
	The Signature of Positive Selection at Randomly Chosen Loci [My Copy] Genetics, Vol. 160 (2002), pp. 1179-1189. by M. Przeworski posted to ebsp-paper by alexeid on 2008-10-20 21:06:46 as
	Approximate bayesian inference reveals evidence for a recent, severe, bottleneck in a Netherlands population of Drosophila melanogaster [My Copy] Genetics, Vol. 172 (2006), pp. 1607-1619. by K. R. Thornton, P. Andolfatto posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Average number of nucleotide differences in a sample from a single subpopulation: a test for population subdivision [My Copy] Genetics, Vol. 117 (1987), pp. 149-153. by C. Strobeck posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	The "hitchhiking effect" revisited [My Copy] Genetics, Vol. 123 (1989), pp. 887-899. by N. L. Kaplan, R. R. Hudson, C. H. Langley posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Statistical tests of the coalescent model based on the haplotype frequency distribution and the number of segregating sites [My Copy] Genetics, Vol. 169 (2005), pp. 1763-1777. by H. Innan, K. Zhang, P. Marjoram, S. Tavare, N. A. Rosenberg posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Modified Hudson-Kreitman-Aguade test and two-dimensional evaluation of neutrality tests [My Copy] Genetics, Vol. 173 (2006), pp. 1725-1733. by H. Innan posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Evidence for positive selection in the superoxide dismutase (Sod) region of Drosophila melanogaster [My Copy] Genetics, Vol. 136 (1994), pp. 1329-1340. by R. R. Hudson, K. Bailey, D. Skarecky, J. Kwiatowski, F. J. Ayala posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	A test of neutral molecular evolution based on nucleotide data [My Copy] Genetics, Vol. 116 (1987), pp. 153-159. by R. R. Hudson, M. Kreitman, M. Aguade posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations [My Copy] Genetics, Vol. 129 (1991), pp. 555-562. by M. Slatkin, R. R. Hudson posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Inferring the Demographic History and Rate of Adaptive Substitution in Drosophila [My Copy] PLoS Genetics, Vol. 13 (2006), pp. 2-10. by H. Li, W. Stephan posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Detecting bottlenecks and selective sweeps from DNA sequence polymorphism [My Copy] Genetics, Vol. 155 (2000), pp. 981-987. by N. Galtier, F. Depaulis, N. H. Barton posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	New statistical tests of neutrality for DNA samples from a population [My Copy] Genetics, Vol. 143 (1996), pp. 557-570. by Y. X. Fu posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Molecular evolution and circulation patterns of human respiratory syncytial virus subgroup A: positively selected sites in the attachment g glycoprotein [My Copy] Journal of Virology, Vol. 78 (2004), pp. 4675-4683. by K. T. Zlateva, P. Lemey, A. M. Vandamme, van M. Ranst posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods [My Copy] Journal of Molecular Evolution, Vol. 39 (1994), pp. 306-314. by Z. Yang posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	The genealogy of a sequence subject to purifying selection at multiple sites [My Copy] Molecular Biology and Evolution, Vol. 19 (2002), pp. 1376-1384. by S. Williamson, M. E. Orive posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Statistical method for testing the neutral mutation hypothesis by DNA polymorphism [My Copy] Genetics, Vol. 123 (1989), pp. 585-595. by F. Tajima posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Hierarchical phylogeneic models for analyzing multipartite sequence data [My Copy] Systematic Biology, Vol. 52 (2003), pp. 649-664. by M. A. Suchard, C. M. R. Kitchen, J. S. Sinsheimer, R. E. Weiss posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Evolutionary similarity among genes [My Copy] Journal of the American Statistical Assocation, Vol. 98 (2003), pp. 653-662. by M. A. Suchard, R. E. Weiss, J. S. Sinsheimer, K. S. Dorman, M. Patel, E. R. B. Mccabe posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Evolutionary similarity among genes when data are sparse [My Copy] Proceedings of the Section on Bayesian Statistical Science. Alexandria, VA: American Statistical Assocation (2000), pp. 92-97. by M. Suchard, R. Weiss, K. Dorman, M. Patel, E. Mccabe, J. Sinsheimer posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Bayesianly justifiable and relevant frequency calculations for the applied statisticians [My Copy] Annals of Statistics, Vol. 12 (1984), pp. 1151-1172. by D. B. Rubin posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	The coalescent [My Copy] Stochastic Processes and their Applications, Vol. 13 (1982), pp. 235-248. by J. F. C. Kingman posted to coalescent ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Statistical properties of new neutrality tests against population growth [My Copy] Molecular Biology and Evolution, Vol. 19 (2002), pp. 2092-2100. by Ramos S. R. Onsins, J. Rozas posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	HSSS model criticism (with discussion) [My Copy] In Highly Structured Stochastic Systems (2003), pp. 423-453. by A. O'hagan edited by P. J. Green, N. L. Hjort, S. T. Richardson posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Detecting positively selected amino acid sites using posterior predictive P-values [My Copy] Pacific Symposium on Biocomputing, Vol. 7 (2002), pp. 576-588. by R. Nielsen, J. P. Huelsenbeck posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	The age of nonsynonymous and synonymous mutations in animal mtDNA and implications for the mildly deleterious theory [My Copy] Genetics, Vol. 153 (1999), pp. 497-506. by R. Nielsen, D. M. Weinreich posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	A test of neutrality and constant population size based on the mismatch distribution [My Copy] Molecular Biology and Evolution, Vol. 21 (2004), pp. 724-731. by S. Mousset, N. Derome, M. Veuille posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Equation of state calculations by fast computing machines [My Copy] Journal of Chemical Physics, Vol. 21 (1953), pp. 1087-1092. by N. Metropolis, A. W. Rosenbluth, M. N. Rosenbluth, A. H. Teller, E. Teller posted to ebsp-paper mcmc by alexeid on 2008-10-20 21:06:45 as
	Posterior predictive $p$-values [My Copy] Annals of Statistics, Vol. 22 (1994), pp. 1142-1160. by X. L. Meng posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	The effects of Hill-Robertson interference between weakly selected mutations on patterns of molecular evolution and variation [My Copy] Genetics, Vol. 155 (2000), pp. 929-944. by G. A. Mcvean, B. Charlesworth posted to ebsp-paper by alexeid on 2008-10-20 21:06:45 as
	Distributions of cherries for two models of trees [My Copy] Mathematical Biosciences, Vol. 164 (2000), pp. 81-92. by A. Mckenzie, M. Steel posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Adaptive protein evolution at the Adh locus in Drosophila [My Copy] Nature, Vol. 351 (1991), pp. 652-654. by J. H. Mcdonald, M. Kreitman posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Mathematical and Statistical Methods for Genetic Analysis [My Copy] (1997) by K. Lange posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Searching for evolutionary patterns in the shape of a phylogenetic tree [My Copy] Evolution, Vol. 47 (1993), pp. 1171-1181. by M. Kirkpatrick, M. Slatkin posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Monte Carlo sampling methods using Markov chains and their applications [My Copy] Biometrika, Vol. 57 (1970), pp. 97-109. by W. K. Hastings posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Preponderance of slightly deleterious polymorphism in mitochondrial DNA: nonsynonymous/synonymous rate ratio is much higher within species than between species [My Copy] Molecular Biology and Evolution, Vol. 15 (1998), pp. 1499-1505. by M. Hasegawa, Y. Cao, Z. Yang posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Approximate Bayesian inference with the weighted likelihood bootstrap [My Copy] Journal of the Royal Statistical Society, Series B, Vol. 56 (1994), pp. 3-48. by M. A. Newton, A. E. Raftery posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Unifying the epidemiological and evolutionary dynamics of pathogens [My Copy] Science, Vol. 303 (2004), pp. 327-332. by B. T. Grenfell, O. G. Pybus, J. R. Gog, et al.J. L. Wood, J. M. Daly, J. A. Mumford, E. C. Holmes posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Posterior predictive assessment of model fitness via realized discrepancies (with discussion) [My Copy] Statistica Sinica, Vol. 6 (1996), pp. 733-807. by A. Gelman, X. Meng, H. Stern posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Statistical tests of neutrality of mutations [My Copy] Genetics, Vol. 133 (1993), pp. 693-709. by Y. X. Fu, W. H. Li posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection [My Copy] Genetics, Vol. 147 (1997), pp. 915-925. by Y. X. Fu posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as
	Long term trends in the evolution of H(3) HA1 human influenza type A [My Copy] Proceedings of the National Academy of Sciences, USA, Vol. 94 (1997), pp. 7712-7718. by W. M. Fitch, R. M. Bush, C. A. Bender, N. J. Cox posted to ebsp-paper by alexeid on 2008-10-20 21:06:44 as

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ebsp-paper	65
phylogenetics	12
bayesian	11
coalescent	10
mcmc	8
population-genetics	6
species-tree	6
gene-tree	5
stochastic	5
epidemics	4
molecular-clock	4
selection	4
abc	2
birth-death	2
divergence-times	2
e-coli	2
mutation	2
mutators	2
population-structure	2
statistical-alignment	2
alignment	1
ancient-dna	1
cooperation	1
covarion	1
deleterious-mutations	1
epidemiological-model	1
evolution	1
fitness	1
gillespie-algorithm	1
hiv-1	1
hmm	1
likelihood	1
local-molecular-clock	1
maximum-likelihood	1
natural	1
neutrality	1
recombination	1
reinfection	1
relaxed-molecular-clock	1
simulations	1
sir	1
sis	1
snp	1
substitution	1
threshold	1

alexeid's library 108 articles Export

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