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lbfgsb-matlab
A MATLAB interface for L-BFGS-Bvarbvs
Large-scale Bayesian variable selection for R and MATLAB.cfw
R code implementing QTL mapping of physiological, behavioral and gene expression phenotypes in Carworth Farms White (CFW) outbred mice.ppi-f1-gwas
R code implementing QTL mapping of prepulse inhibition phenotypes in F1 crosses of common inbred mouse strainspcarbo
Source code I have shared and analyses I have done.lps
Analysis of LPS (bulk) RNA-seq data from Chevrier lab.dotfiles
Files for setting up shell environment on my MacBook and the compute clusters I regularly use.bmapathway
MATLAB source code to accompany the PLoS Genetics paper, "Integrated enrichment analysis of variants and pathways in genome-wide association studies indicates central role for IL-2 signaling genes in type 1 diabetes, and cytokine signaling genes in Crohn's disease".neuron
Code and data implementing statistical analyses for Neuron manuscript, "Genetic background limits generalizability of genotype-phenotype relationships"R-survival-large-scale
Materials for tutorial, "A survival guide to large-scale data analysis in R."lgsmfear
R code implementing QTL mapping of fear conditioning traits in LG/J x SM/J mouse advanced intercross line.genotype
Various scripts and functions for manipulating genetic data.kyoto
Module for 2014 Kyoto Course on Bioinformaticsb6d2muscle
R code implementing QTL mapping of hindlimb muscle weights in C57BL/6J ("B6") x DBA/2J ("D2") mouse advanced intercross line.mr-ash
A simple implementation of the "multiple regression adaptive shrinkage" model, with examples.pcarbo.github.io
Personal websitemixopt-experiments
Empirical comparisons of algorithms for solving the "mixture distribution" optimization problem.rrqr
Toy R package implementing the rank-revealing QR decomposition using RcppEigen.vardemo
Small demonstration of importance sampling, Laplace's method and a variational approximation for logistic regressioncolab
Explorations of the Google Colaboratory.mr-mash
A simple implementation of the multivariate multiple regression method with adaptive shrinkage priors ("mr-mash"), with examples.genetic-data-analysis-rcc-1
Research Computing Center introduction to analysis and visualization of genetic data, Part 1genetic-data-analysis-rcc-2
Research Computing Center introduction to analysis and visualization of genetic data, Part 2breedail
R code to select breeders from an advanced intercross line so that they minimize inbreeding in the offspringgwas-demos
Some R code used to illustrate basic concepts in genome-wide association studies.Love Open Source and this site? Check out how you can help us