Figure Gallery¶

Representative images and animations from pyCyto analyses. All data shown here are from cytotoxicity assays described in the associated paper.

Live-Cell Microscopy Animations¶

Confocal Cytotoxicity Assay

eGFP-tagged NY-ESO-1 tumor cells (green) targeted by engineered T cells (red). PI death marker shown in blue. Confocal 2D time-lapse.

Cell Cluster Networks

Dynamic cell clustering network visualized over time during immune cell–tumor interactions. Nodes represent cells; edges represent contacts.

Large FOV Lightsheet Assay

High-throughput imaging of cytotoxic events across a large imaging region using lightsheet microscopy.

Contact Analysis — Zoomed Region

Close-up of lightsheet data highlighting immune–tumor cell contacts. Green: eGFP NY-ESO-1 cancer cells; Magenta: target-specific engineered T cells.

Composite Channel Overlay

Full-field composite image with scale bar. Channels: T cells (red), cancer cells (green), PI death marker (blue).

Cropped Region with Scale Bar

Cropped region of interest showing a representative killing event with scale bar.

T Cell Segmentation Overlay

Cellpose segmentation labels overlaid on the T cell channel (cropped). Each colored region is one detected T cell.

Cancer Cell Segmentation Overlay

Cellpose segmentation labels overlaid on the cancer cell channel (cropped). Labels are used for PI intensity measurement.

ROI Composite

Composite image with annotated region of interest used for contact analysis.

Composite — Full Field

Full-field composite without scale bar — suitable for downstream figure assembly.

Time-Lagged MSD

Mean squared displacement (MSD) curves across lag times. Used to characterise vesicle transport modes (directed, diffusive, confined).

Mean Signal Intensity Over Time

Channel-averaged fluorescence intensity traces over the full time-lapse. Shows signal dynamics during vesicle loading and release events.

Crop — Frame 1

Representative cropped field at t=1. Scale bar overlay shows spatial reference for vesicle size estimation.

Crop — Frame 201

Representative cropped field at t=201 — mid-experiment state showing vesicle redistribution.

Animations (GIFs) are Git LFS-managed files under doc/assets/.
Paper images (PNGs/SVGs) are committed to doc/assets/gallery/ — no LFS required.
Full vesicle tracking notebooks: notebooks/05_vesicle/.