Search results

• Baypass
  [[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] ...plicitly account for (and may estimate) the covariance structure among the population allele frequencies that originates from the shared history of the populatio
  3 KB (355 words) - 21:05, 6 December 2019
• Ibdne
  [[Category:Software]][[Category:Biology]][[Category:NGS]] ...program estimates the historical effective population size of a homogenous population. The input for the IBDNe program is the set of identity-by-descent (IBD) se
  3 KB (308 words) - 17:05, 27 May 2022
• EIGENSOFT
  [[Category:Software]][[Category:Biology]] ...ociation studies (EIGENSTRAT, Price et al. 2006) and to detect and analyze population structure (SMARTPCA, Patterson et al. 2006).
  3 KB (295 words) - 14:58, 15 August 2022
• PGDSpider
  [[Category:Software]][[Category:Biology]][[Category:NGS]] ...Besides the conventional population genetics formats, PGDSpider integrates population genomics data formats commonly used to store and handle next-generation seq
  3 KB (387 words) - 19:04, 10 June 2022
• MIGRATE-N
  [[Category:Software]][[Category:Genomics]][[Category:Biology]] ...te estimates effective population sizes and past migration rates between n population assuming a migration matrix model with asymmetric migration rates and diffe
  5 KB (636 words) - 16:05, 22 December 2022
• NeEstimator
  [[Category:Software]][[Category:Biology]] ...ry effective population size (Ne) using multi-locus diploid genotypes from population samples.
  3 KB (375 words) - 19:56, 12 August 2022
• 4p
  [[Category:Software]][[Category:Biology]][[Category:Variant Calling]] population genetics statistics from large SNPs dataset.
  2 KB (285 words) - 20:36, 11 August 2022
• HISAT2
  [[Category:Software]][[Category:Biology]][[Category:NGS]][[Category:Alignment]] ...a genomic region of 56 Kbp, with 55,000 indexes needed to cover the human population). These small indexes (called local indexes), combined with several alignme
  3 KB (399 words) - 19:31, 24 August 2022
• 3PCLR
  [[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] ...It can distinguish selective events that occurred in the common ancestral population of the two most closely-related populations from those events that occurred
  3 KB (307 words) - 20:35, 11 August 2022
• FastStructure
  [[Category:Software]][[Category:Biology]][[Category:Genomics]] A variational framework for inferring population structure from SNP genotype data.
  3 KB (297 words) - 18:54, 12 August 2022
• Delineate
  [[Category:Biology]] ...mutually-exclusive and jointly-comprehensive subsets, where each subset of population lineages represents a distinct species.
  3 KB (303 words) - 20:46, 18 May 2021
• LFMM
  [[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] The LFMM computer program includes an integrated framework based on population genetics, ecological modeling and statistical techniques for screening geno
  3 KB (337 words) - 19:50, 15 August 2022
• TreeMix
  [[Category:Software]][[Category:Biology]][[Category:Phylogenetics]] TreeMix is a method for inferring the patterns of population splits and mixtures in the history of a set of populations. In the underlyi
  3 KB (356 words) - 17:56, 10 June 2022
• Pcangsd
  [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]] ...rogeneous/structured populations using principal component analysis (PCA). Population structure is inferred by estimating individual allele frequencies in an ite
  3 KB (343 words) - 18:21, 8 December 2023
• Fastsimcoal
  [[Category:Software]][[Category:Phylogenetics]][[Category:Biology]] ...and fission, admixture events, changes in migration matrix, or changes in population growth rates. The time of sampling can be specified independently for each
  4 KB (481 words) - 15:25, 15 August 2022
• Mvftools
  ...This contextual encoding allows for rapid computation of phylogenetic and population genetic analyses, and small file sizes that enable data sharing and distrib ...logenomics and Population Genomics" IEEE/ACM Transactions on Computational Biology and Bioinformatics. 15(4):1231-1238.]
  3 KB (370 words) - 13:58, 30 April 2020
• Genome STRiP
  [[Category:Software]][[Category:Biology]][[Category:Genomics]][[Category:NGS]] ...n, such as a set of genomes from the 1000 Genomes Project. The background population does not need to be matched to the target individuals.
  3 KB (446 words) - 19:28, 10 June 2022
• Msvar
  [[Category:Software]][[Category:Biology]][[Category:Genomics]] ...software for statistical inference in population genetics and evolutionary biology.
  2 KB (260 words) - 13:35, 19 August 2022
• Ngstools
  [[Category:Software]][[Category:biology]][[Category:NGS]] ngsTools is a collection of programs for population genetics analyses from NGS data, taking into account data statistical uncer
  5 KB (708 words) - 15:31, 14 December 2022
• Flopp
  [[Category:Software]][[Category:Biology]][[Category:Population Biology]]
  2 KB (286 words) - 18:35, 1 December 2023

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