Clean and identify errors in GWAS summary statistics

List of software packages for multi-omics analysis

Landing zone for the Napistu project for working with genome-scale mechanistic networks

Pleiotropy-informed significance analysis with functional false discovery rates

Identifying latent genetic interactions in genome-wide association studies using multiple traits

Template for response to peer review of scientific article

R package for identifying differentially expressed genes from genome-wide gene expression profiling studies.

Simulate Genotypes and Phenotypes (wrapper of bnpsd, simfam, and simtrait)

Lecture Notes on Computational and Mathematical Population Genetics

Applied Computational Genomics Course at UU: Spring 2020

Mathematical analysis of tissue-resident memory T cell populations

Understanding suppression of HIV in R

Statistical GENetics Input/Output Functions

Assessing the increase in power from increasing read depth in a given RNA-Seq study

A repo of short "vignettes" illustrating statistical concepts

LaTeX package with math symbols for statistical genetics models, particularly kinship coefficients, including options like colors and notation simplifications

My academic CV LaTeX source files

R package to model and simulate admixed populations

R package to estimate kinship and FST from SNP data

Handle Gzip'd Files Transparently

Code and examples for JHU Computational Genomics class

A collection of papers and books that Storey Lab members should read and others may find useful

Subsampling of high-throughput sequencing count data

Singular Value Decomposition Visualization

Jackstraw Weighted Shrinkage Methods

Statistical Inference for Unsupervised Learning

Improve protein domain predictions from HMMER3: Computes domain q-values and local FDRs, and tiered q-values (combining HMMER3 domain and sequence data).

Systematic Identification of Meaningful Metabolic Enzyme Regulation

logistic factor analysis

R package to estimate q-values and false discovery rate quantities.