Data and code from Applied Predictive Modeling (2013)

Multi-subject Single Cell Deconvolution

Multiscale embedded gene co-expression network analysis

tidymodels code for the book Applied Predictive Modeling

R toolkit for single cell genomics

bioBakery tools for meta'omic profiling

tidymodels code for Applied Predictive Modeling

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

Accompanying code for the tutorial: Annotating single cell transcriptomic maps using automated and manual methods

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

A bioinformatics pipeline for viral transcriptome detection and quantification considering splicing.

Deep-Learning (Convolutional Neural Network) modeling procedure to classify Cancer/tumor Sites/types.

Python Programming for Biologists

Software to classify biological phenotypes from single-cell image-based morphology profiles

A collaboratively written review paper on deep learning, genomics, and precision medicine

R package for normalizing RNA-seq data to make them comparable to microarray data.

DISSEQT – DIStribution based modeling of SEQuence Space Time dynamics

Aggregate results from bioinformatics analyses across many samples into a single report.

Just a Microbiology System (JAMS) - a suite for analyzing microbiological sequencing data for use on NIH HPC systems (Biowulf)

Pipeliner Program

Prize-Collecting Steiner Forests for Interactomes