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abstract-book

Scripts for generating the abstract book

adding-species-manuscript

manuscript materials for the adding species paper

analysis

Analysis of inference methods on standard population models

ancestral-waves

Simulations of ancestral waves for the continuum, Wright-Fisher and Moran models.

bed-reader-feedstock

A conda-smithy repository for bed-reader.

bio2zarr

Convert bioinformatics file formats to Zarr

bioconda-recipes

Conda recipes for the bioconda channel.

cf-mark-broken

compliance

A compliance test suite for the APIs defined in the schemas repository.

conference-website-template

Simple HTML/CSS website template for a small academic conference

cythongsl-feedstock

A conda-smithy repository for cythongsl.

cyvcf2

cython + htslib == fast VCF and BCF processing

demes

Tools for describing and manipulating demographic models.

demes-feedstock

A conda-smithy repository for demes.

demes-paper

Manuscript for the demes package for demographic model specification.

demes-spec

demes' data model specification

discsim

Efficient coalescent simulations in a spatial continuum

divmat

dynamic-ts

Dynamic tree sequences for forward simulations

ercs

Coalescent simulations in continuous space

fastarg

Fast heuristic ARG construction

fastmac

ftprime_ms

fwdpy11_arg_example

Example of tracking the ARG during forward simulations. Implementation is a Python package using fwdpp, fwdpy11, msprime, and pybind11.

ga4gh-client-c

Experimental C client library for the GA4GH API.

ga4gh-variant-sim

Simulations for benchmarking large-scale variant stores

gqt

A genotype query interface.

gramtools

Genome inference from a population reference graph

gsl-feedstock

A conda-smithy repository for gsl.

gubbins

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins