Beast code in Giters

Zachary A Szpiech's starred repositories

LODESTAR

Local Decomposition and Similarity to All Regions

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compPopGen_ms

Github repository for the manuscript associated with harvardinformatics/snpArcher

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snpArcher

Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.

Language:PythonMIT6400

stdpopsim

A library of standard population genetic models

Language:PythonGPL-3.012100

discoal is a coalescent simulation program capable of simulating models with recombination, selective sweeps, and demographic changes including population splits, admixture events, and ancient samples

Language:TeXGPL-3.04700

Dsuite

Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species

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smcpp

SMC++ infers population history from whole-genome sequence data.

Language:C++GPL-3.014900

pyrho

Fast inference of fine-scale recombination rates based on fused-LASSO

Language:PythonMIT4200

pong

Fast analysis and visualization of latent clusters in population genetic data

Language:Python6400

SDS

R code to compute the Singleton Density Score (SDS)

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cms

Composite of Multiple Signals: tests for selection in meiotically recombinant populations

Language:PythonBSD-2-Clause1400

SublimeAStyleFormatter

SublimeAStyleFormatter is a code formatter/beautifier for Sublime Text 2 & 3. It provides ability to format C/C++/C#/Java files.

Language:PythonMIT28500

figtree

Fast computation of Gauss transforms in multiple dimensions; enables efficient Kernel Density Estimation (KDE) with Gaussian kernels.

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