Pinned Repositories
analysis
Analysis of inference methods on standard population models
discsim
Efficient coalescent simulations in a spatial continuum
ercs
Coalescent simulations in continuous space
msprime-model-errors
A short manuscript describing some modelling errors made with msprime
msprime-paper
Comparisons of simulators for the msprime paper
phylokit
Phylogenetics toolkit for the PyData Ecosystem
python-c-api-demo
A demo of the Python C API for CodeMonkeys
sc2ts
Infer a succinct tree sequence from SARS-COV-2 variation data
sc2ts-paper
jeromekelleher's Repositories
jeromekelleher/discsim
Efficient coalescent simulations in a spatial continuum
jeromekelleher/ercs
Coalescent simulations in continuous space
jeromekelleher/ancestral-waves
Simulations of ancestral waves for the continuum, Wright-Fisher and Moran models.
jeromekelleher/compliance
A compliance test suite for the APIs defined in the schemas repository.
jeromekelleher/gqt
A genotype query interface.
jeromekelleher/gubbins
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
jeromekelleher/htpc
Code used for running my HTPC
jeromekelleher/jekyll-now
Build a Jekyll blog in minutes, without touching the command line.
jeromekelleher/kingman
An example Python package, which simulates Kingman's coalescent.
jeromekelleher/mccortex
Cortex on steroids: for larger populations with better assembly
jeromekelleher/protobuf
Protocol Buffers - Google's data interchange format
jeromekelleher/pysam
Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.
jeromekelleher/scripts
EMR training repo
jeromekelleher/scrm
An accurate coalescent simulator for genome-scale sequences
jeromekelleher/vcf2avro
Experimental tool to convert Variant Call Format files to Apache Avro