A single-cell analysis toolkit to jointly analyze samples from distinct conditions

Spatial Transcriptomic Analysis using Reference-Free auxiliarY deep generative modeling and Shared Histology

Symphony algorithm for inference of cell type specific gene regulatory networks from scRNA-seq and ATAC-seq

GP regression model for DLI therapy data for CML

Bayesian Hierarchical Modeling for Clustering Single Cell Genomic Data

ATAC-seq analysis pipelines

Single cell trajectory detection

Grouping of Lymphocyte Interactions by Paratope Hotspots

R Codebase for BISCUIT: Infinite Mixture Model to cluster and impute single cells.

zero-inflated negative binomial gene expression in R

ATAC-seq lab for BIOINF525

ATAC-seq and DNase-seq processing pipeline

ATAC-seq lab for BIOINF545

R Codebase for BISCUIT: Infinite Mixture Model to cluster and impute single cells.

Single-Cell Sequencing Quality Control and Processing Software

A probabilistic programming language in TensorFlow. Deep generative models, variational inference.

Bayes/Stan Short Course | July 2016 | NYC

STAR based ENCODE Long RNA-Seq processing pipeline