molpopgen
Faculty member in Ecology & Evolutionary Biology at UC Irvine. @ThorntonLab is our group's GitHub account.
University of California IrvineIrvine, CA
Pinned Repositories
BigDataFormats
Tutorial on programming or "big data"/bioinformatics
fwdpp
fwdpp is a C++ template library for implementing efficient forward-time population genetic simulations
fwdpy
forward-time population genetic simulation in python
fwdpy11
Forward-time simulation in Python using fwdpp
gimp_scripts
Plugins for GIMP
libsequence
libsequence: a C++ class library for evolutionary genetic analysis
msstats
msstats calculates many common popgen summary statistics from the output of the coalescent simulation "ms".
pecnv
C++ tools for calling structural variants from PE mapping of short reads.
molpopgen's Repositories
molpopgen/pecnv
C++ tools for calling structural variants from PE mapping of short reads.
molpopgen/Rcode4teaching
R code that I use for teaching and illustration of population genetic concepts.
molpopgen/analysis
Programs for the (pre-NGS-era) analysis of population-genetic data.
molpopgen/buRden
Rcpp functions for performing "burden" tests.
molpopgen/ABCreg
Automating approximate Bayesian computation by local linear regression
molpopgen/newgene
The simulation code used in doi:10.1534/genetics.107.074948
molpopgen/sequtils
Tools for manipulation of (pre-NGS-era) sequence data. (Probably only for old folks at this point in time...)
molpopgen/travis_test
How to get a travis yml file to do what I want.
molpopgen/baldwin_brown_2014
Code from Baldwin-Brown, Long, and Thornton (2014) Mol Biol Evol
molpopgen/bedtricks
Collections of tips/tricks/commands related to using bedtools
molpopgen/DataScience
Materials related to a proposed class in data science for PhD students.
molpopgen/msld
Calculate LD stats from coalescent simulation output
molpopgen/omega
Calculates Kim and Nielsen's (2004, Genetics 167:1513) "omega_max" statistic
molpopgen/qRHHtest
Test result for the qRHH package
molpopgen/simple_knitr
A very simple example of knitr + latex + Makefile
molpopgen/TennessenEAonly
The EA demographic model from Tennessen et al.