poolSeq-package: Analyze Pool-seq Data
In popgenvienna/poolseq: Simulate and Analyze Pool-seq Data

Description Author(s) References See Also

The poolSeq package provides a variety of functions to simulate and analyze Pool-seq data, including estimation of the effective population size, selection coefficients and dominance parameters.

Thomas Taus

Maintainer: Thomas Taus <7homas.7aus@gmail.com>

Waples R. S.: A generalized approach for estimating effective population size from temporal changes in allele frequency, Genetics 1989, 121, 379–391.

Agresti A.: Categorical data analysis (second edition). New York: Wiley 2002

Jorde P. E. and Ryman N.: Unbiased estimator for genetic drift and effective population size, Genetics 2007, 177 927–935.

Frick K., Munk, A. and Sieling, H.: Multiscale Change-Point Inference, Journal of the Royal Statistical Society: Series B 2014, 76, 495-580.

Futschik A., Hotz T., Munk A. and Sieling H.: Multiresolution DNA partitioning: statistical evidence for segments, Bioinformatics 2014, 30, 2255-2262.

Jónás A., Taus T., Kosiol C., Schlötterer C. & Futschik A.: Estimating effective population size from temporal allele frequency changes in experimental evolution, manuscript in preparation.

wf.traj, sample.alleles, estimateNe, cmh.test, chi.sq.test and read.sync.