SchriderLab

TreeSeqPopGenInference

Exploring how to use tree sequences for multiple population genetic inference tasks.

selectionScanExercise

evoMLWorkshop2024

simscale-snakemake

Snakemake pipeline for parsing simulation outputs across scaling factors

Timesweeper

Python package for detecting positive selective sweeps using time-series genomics sampling data.

PG-Alignments-GAN

Generative Adversarial Network (GAN) of Population Genetic Alignments

introNets

geneConvSweeps

Code for simulation study exaiming the impact of gene conversion on the "softness" of selective sweeps

timesweeper-experiments

Repo for experiments for the TimeSweeper manuscript.

GeneGraphs

Repo for generating genetic trees from specified demographic models and running predictions via PyTorch Geometric

drosophila_phylogeny

Pipeline overview and code (including BLT-DCT program) for widespread introgression across a phylogeny of 155 Drosophila genomes

ArtificialGenes

Using generative networks to create sequences of artificial DNA

sim_scaling

CancerSim

intro_UNET

UNET for semantic segmentation of SNP data.

posSelVsBgs

Simulations comparing expected patterns of variation under hitchhiking and BGS models in human/drosophila genomes

dfoil

DFOIL: Introgression Testing for Five Taxa

Tree_learning

Code for accurate inference of tree topologies from multiple sequence alignments using deep learning