GEO-BON Genetics Working Group simulation based evaluations of Essential Biodiversity Variables (EBVs)

Lecture notes/book in progress on computing for conservation genomics

Where's my Heterozygotes at? Observations on genotyping Accuracy

rmetasim population genetic simulation engine

TeraStructure is a new algorithm to fit Bayesian models of genetic variation in human populations on tera-sample-sized data sets (10^12 observed genotypes, i.e., 1M individuals at 1M SNPs). This pa…

A fast, distributed, high performance gradient boosting (GBT, GBDT, GBRT, GBM or MART) framework based on decision tree algorithms, used for ranking, classification and many other machine learning …

mixture classification, constraint optimization, outlier detection, population structure, admixture history, and selection detection.

A Fast Implementation of Random Forests

🚀 R package: future: Unified Parallel and Distributed Processing in R for Everyone

Fast multivariate imputation by random forests.

R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development version only)

strataG is a toolkit for haploid sequence and multilocus genetic data summaries, and analyses of population structure.

R package for inferring copy number from read depth

Source code for the program MavericK, described fully at www.bobverity.com/maverick

🐈🐈🐈🐈: tools for working with categorical variables (factors)

SCAT software for "Smoothed and Continuous Assignment Tests"

Simple and flexible manipulation of genomic data.

Assigner tutorial for Benestan et al. erratum

RADseq workflow using STACKS