22 projects
biofuse
Read-only FUSE filesystem views over VCF Zarr data
vcztools
bcftools-compatible querying and format conversion for VCF Zarr
bio2zarr
Convert bioinformatics data to Zarr
msprime
Simulate genealogical trees and genomic sequence data using population genetic models
tskit
The tree sequence toolkit.
pyslim
Manipulate tree sequences produced by SLiM.
tscompare
Tools for comparing tree sequences.
tsbrowse
Webapp to view and visualise the information structure in tskit ARGs
tsinfer
Infer tree sequences from genetic variation data.
sc2ts
Infer ARGs for SARS-Cov2 in tskit format
tszip
Compression utilities for tree sequences
tstrait
Quantitative trait simulation of tree sequence data
kastore
A write-once-read-many store for simple numerical data
stdpopsim
A library of population genetic simulation models
lshmm
None
wormtable
Write-once read-many data sets using Berkeley DB.
demes
tools for describing demographic models
htsget
Python API and command line interface for the GA4GH htsget API.
phylokit
"Experimental, do not use!"
kingman
An example Python package to simulate Kingman's coalescent
discsim
Efficient coalescent simulation in continuous space
ercs
Coalescent simulations in continuous space
