Benchmarking computational single cell ATAC-seq methods

STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data

Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping

Regulatory networks with Direct Information in python

Interactive software tool for the assignment of cell types in single-cell studies.

Low-dimensional Projection of Single Cell Velocity

Single cell type annotation guided by cell atlases, with freedom to be queer

Version 2.1.0 released

Single Cell Analysis course at Cold Spring Harbor Laboratory 2017

R package - Analysis of Single Cell Expression, Normalisation and Differential expression (ascend)

OmicsSuite website for releasing new version.

🍊🔬 Orange add-on for gene expression of single cell data

Breast Cancer Single Cell Atlas

Python version of DISCO toolkit

A Shiny app for visualizing and exploring single cell RNA-sequencing data

A effort to collect all of the scRNA imputation methods and allow them to interface with scRNA-seq libraries (i. e. Seurat, SingleCellAssay, etc...)

Blue Brain Python Electrical Modeling Pipeline

Pipeline for flow cytometry anlaysis

RNA-seq, smRNA-seq, scRNA-seq & ATAC-seq workflows for @cornell-TREX