Related Experiment Video
Updated: May 2, 2026
ExCYT: A Graphical User Interface for Streamlining Analysis of High-Dimensional Cytometry Data
Published on: January 16, 2019
TooManyCellsInteractive: A visualization tool for dynamic exploration of single-cell data
Conor Klamann1, Christie J Lau2,3, Javier Ruiz-Ramírez2
1Data Sciences Institute, University of Toronto, Toronto, ON M5G 1Z5, Canada.
Background:
As single-cell sequencing technologies continue to advance, the growing volume and complexity of the ensuing data present new analytical challenges. Large cellular populations from single-cell atlases are more difficult to visualize and require extensive processing to identify biologically relevant subpopulations. Managing these workflows is also laborious for technical users and unintuitive for nontechnical users.
Results:
We present TooManyCellsInteractive (TMCI), a browser-based JavaScript application for interactive exploration of cell populations. TMCI provides an intuitive interface to visualize and manipulate a radial tree representation of hierarchical cell subpopulations and allows users to easily overlay, filter, and compare biological features at multiple resolutions. Here we describe the software architecture and demonstrate how we used TMCI in a pan-cancer analysis to identify unique survival pathways among drug-tolerant persister cells.
Conclusions:
TMCI will facilitate exploration and visualization of large-scale sequencing data in a user-friendly way. TMCI is freely available at https://github.com/schwartzlab-methods/too-many-cells-interactive. An example tree from data within this article is available at https://tmci.schwartzlab.ca/.
