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1000genomes_selection_exercise

1000 Genomes Selection Exercise

alstructure

An R package that implements the ALStructure algorithm for estimating the admixture model of genetic population structure

ashr

An R package for adaptive shrinkage

bvashr

cfna_mixture

coalescent-lab

cython_template

Package template for a project using Cython

drift-workflow

feems-analysis

fiveminutestats

A repo of short "vignettes" illustrating statistical concepts; http://stephens999.github.io/fiveMinuteStats/analysis/

flashier

A faster and angrier package for EBMF. In progress.

freq_api

A REST API for geographically distributed allele frequency data

geno_gan

ggv

ggv_paper

gwass

gwass_pipeline

hgdp_popstruct_exercise

A classroom exercise using HGDP SNP data to introduce population structure concepts

hgen48600

A graduate class for computational biologists on Inference and Models

hgen48600_project

ipynb-website

Simple data science website using Jupyter notebooks.

jhmarcus.github.io

latex-templates

A collection of LaTeX templates used for research, courses, and miscellanea.

lfa

logistic factor analysis

mbl_introworkshop

MBL Intro Workshop

pcshrink

A python package for correcting PCA prediction bias

presentation

Rmd template for presentations

probability

Probabilistic reasoning and statistical analysis in TensorFlow

proxfa

R package implementing a proximal gradient descent algorithm for fitting factor analysis with constraints

sisg_mcmc_course

Lecture notes for Eric Anderson and Matthew Stephens SISG course on MCMC for Statistical Genetics