Population Genomics Python Packages

pypop-genomics

PyPop: Python for Population Genomics

dadi-cli

Automated and Distributed Population Genetic Model Inference from Allele Frequency Spectra

haplodynamics

A python library to develop genomic data simulators

bamrefine

Small program to mask positions that are likely to result in PMD artifact from a BAM file using a predefined SNP catalog

timesweeper

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

sai-pg

Statistics for Adaptive Introgression

sstar

Detecting Archaic Introgression from Population Genetic Data with S*

relernn

Recombination Landscape Estimation using Recurrent Neural Networks

graphpop-cli

GraphPop is a population genomics platform that replaces the flat-file, matrix-based paradigm with a graph-native architecture.

graphmana

Graph-native data management platform for variant genomics

project-cli-ab3nzac1yc-hatch

Automated and Distributed Population Genetic Model Inference from Allele Frequency Spectra