Explore projects

Scripts for SMT trajectory analysis in 'Changes in searching behaviour of CSL complexes in Notch active conditions'.

A Part II /Part III project for single molecule tracking tools.

Files associated with the Schwall et al. 2021 Molecular Systems Biology paper.

adjustments to robust_correlation_toolbox to ensure alpha = 0.05 across all sample sizes.

Stochastic pulsing of gene expression enables the generation of spatial patterns in Bacillus subtilis biofilms

Odds and ends that may be of use...

Francois's MATLAB code

Project code for Greenwood et al., "A spatial model of the plant circadian clock reveals design principles for coordinated timing".

Project data and code for Greenwood et al., 2019, "Coordinated circadian timing through the integration of local inputs in Arabidopsis thaliana".

Project code for Gould et al., 2018, "Coordination of robust single cell rhythms in the Arabidopsis circadian clock".

Scripts and instructions on how to reproduce the work described in Gibson, Jönsson, Spelman (2024) "Mean-field theory approach to three-dimensional nematic phase transitions in microtubules"

An unsupervised segmentation and edge detection hybrid algorithm for PLIF images.

Scripts used for the manuscript "Tissue folding at the organ-meristem boundary results in nuclear compression and chromatin compaction"

This repository contains code implementations for the Discriminative Kalman Filter.

These slides were presented at my dissertation defense (Division of Applied Mathematics, Brown University, 23 May 2018).

companion code for "The Discriminative Kalman Filter for Bayesian Filtering with Nonlinear and Nongaussian Observation Models"

Segmentation tool allowing finding nuclei in 3D and cells via membranes in 2D.