PhHermann/LDJump: Estimating Variable Recombination Rates from Population Genetic Data

This package estimates variable recombination rates from population genetic data. It is a unix based program (with a necessary installation of LDhat), able to estimate the recombination map of sequences in fasta and vcf format. Sequences are divided in short segments of user defined length. The recombination rate is estimated for every segment with a regression model. This set of estimates is fed in a segmentation algorithm (SMUCE) to estimate the breakpoints of the recombination landscape.

Getting started

Package details

AuthorPhilipp Hermann, Andreas Futschik
MaintainerPhilipp Hermann <[email protected]>
LicenseMIT + file LICENSE
Version0.1.10
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("devtools")
library(devtools)
install_github("PhHermann/LDJump")
PhHermann/LDJump documentation built on Oct. 18, 2018, 11:06 a.m.