HMS Cellenics Instance Coming Soon!

Check back for updates on when the HMS instance will be up and running and for instructions on how to access this new tool.


Cellenics is an open-source platform aimed at empowering research biologists to analyze their own single-cell RNA sequencing (scRNA-seq) datasets. This user-facing application for project management, data processing, quality control, and visualization (Fig. 1) was developed as part of a collaborative effort between Harvard Medical School’s (HMS’) Department of Biomedical Informatics (DBMI), Single Cell Core, and the TH Chan Harvard School of Public Health Bioinformatics Core, with input from HMS’ Biopolymers Facility and Center for Computational Biomedicine (CCB). Cellenics modules enable in-depth data exploration through differential expression and pathway analyses as well as the generation of fully customizable plots for publication.

Figure 1: Cellenics Platform

Cellenics is an open-source, cloud-based platform developed in the Department of Biomedical Informatics.


A. Current Cellenics Modules developed in Phases 1 & 2. B. Data Processing module. C. Data Exploration module. D. Differential expression tool within the Data Exploration module. E. Plots and Tables module.


Tutorials for Users

Cellenics Code

Cellenics code is available under the Cellenics github organization page.