Beast code in Giters

Iain Mathieson's repositories

gdc

Short scripts for converting genetic data between formats.

Language:PythonApache-2.029 4 4

europe_selection

Analysis scripts from the paper "Eight thousand years of natural selection in Europe".

Language:RMIT10 30

spectrum

Scripts for analysing mutational spectrum

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f2

Scripts for estimating the age of f2 variants from the paper "Demography and the age of rare variants"

Language:RNOASSERTION6 20

slattice

HMM-based estimator for selection coefficients in both single and lattice populations from the paper "Estimating selection coefficients in spatially structured populations"

Language:RNOASSERTION5 20

spindrift

Drift, admixture and selection

Language:Python4 20

Archaic23

Estimate archaic ancestry from 23andMe data

Language:R1 20

pedigree

Simulate chunks in a pedigree

Language:R1 20

phibd

IBD estimation from pseudo-haploid data

Language:Python1 20

pyEigenstrat

python I/O for eigenstrat/ancestrymap format

Language:PythonNOASSERTION1 2 1

rare_var_assoc

Analysis scripts from the paper "Differential confounding of rare and common variants in spatially structured populations"

Language:RNOASSERTION1 20

bash_stuff

.bashrc and other scripts

Language:Shell020

gdc3

Short scripts for converting genetic data between formats (python3)

Language:Python020

ggs

Grid Genotype Simulator

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lace

Local ancestry from pseudo-haploid data

Language:Python020

mathii.github.com

Website

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msmc

Implementation of the multiple sequential markovian coalescent

Language:DGPL-3.0020

pace

Nearest neighbour based phasing algorithm

Language:PythonNOASSERTION02 3

Platypus

Platypus Variant Caller

Language:CGPL-3.0020