Code for the paper "SynthMT: Synthetic Data Enables Human-Grade Microtubule Analysis with Foundation Models for Segmentation".

A javascript implementation of the moshpits project for any browser

Biomolecular Illustration Tool

Code for analyzing confocal microscopy images.

Let's infer the forces that cells generate during time series by looking at the angles they make with each other.

Simulate cells and particles

Official release of the ProGen models

Final version of Monte Carlo model with user interface.

Extraction and tracking of dynamic biopolymer networks.

https://www.youtube.com/channel/UC34rW-HtPJulxr5wp2Xa04w?sub_confirmation=1

Code and data to accompany The Rules of Contagion

Accompanying code for: Kucharski AJ, Kama M et al. Using paired serology and surveillance data to quantify dengue transmission and control during a large outbreak in Fiji. eLife, 2018

An ImageJ/R pipeline for filopodia dynamics analysis

ImageJ helper macros for calcium imaging timeseries

A toolkit to quantify cell dynamics in living tissues