SpectralTDF: transition densities of diffusion processes with time-varying selection parameters, mutation rates and effective population sizes.
Bioinformatics
; 32(5): 795-7, 2016 03 01.
Article
in En
| MEDLINE
| ID: mdl-26556388
ABSTRACT
MOTIVATION In the Wright-Fisher diffusion, the transition density function describes the time evolution of the population-wide frequency of an allele. This function has several practical applications in population genetics and computing it for biologically realistic scenarios with selection and demography is an important problem. RESULTS:
We develop an efficient method for finding a spectral representation of the transition density function for a general model where the effective population size, selection coefficients and mutation parameters vary over time in a piecewise constant manner. AVAILABILITY AND IMPLEMENTATION The method, called SpectralTDF, is available at https//sourceforge.net/projects/spectraltdf/ CONTACT yss@berkeley.edu SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
Mutation Rate
Type of study:
Prognostic_studies
Language:
En
Journal:
Bioinformatics
Journal subject:
INFORMATICA MEDICA
Year:
2016
Document type:
Article
Affiliation country:
United States