standard-aaron

clues

Coalescent Likelihood Under Effects of Selection - Inferring selection & allele frequency trajectories from nucleotide data

palm

Polygenic Adaptation Likelihood Method - Inferring natural selection on complex traits from whole-genome genealogies

clues-v0

Approximate full likelihood inference of selection / inferring allele frequency trajectories

reproduce_sor_2016

Code and notebooks for review of Pitt et al, 2016

35ajstern.github.io

ASMC

Ascertained Sequentially Markovian Coalescent

deep-learning-projects

Collection of code and notebooks implementing small deep learning examples/project in tensorflow/keras.

discoal

[this fork prints trajectories] discoal is a coalescent simulation program capable of simulating models with recombination, selective sweeps, and demographic changes including population splits, admixture events, and ancient samples

h2-selection

MajorScalesPlots

color-coded plots of the major scales

ldsc

LD Score Regression (LDSC)

mullets

multi-locus time-series analysis

ohana_simulation_models

palm_56_traits

pyslim_ssvs

scripts for simulating ssvs using tree sequences in msprime/slim.

rhemc

rhps_coalescent

Code associated with the paper "Reconstructing the history of polygenic scores using coalescent trees" by M.D. Edge and G. Coop.

spaceness

Space is the Place: Effects of Continuous Spatial Structure on Analysis of Population Genetic Data

stratification