shivChitinous

tureactor

models of 2D reaction-diffusion systems

seq-al

aligning DNA and protein sequences using dynamic programming

optimal-forager

numerical description of optimal foraging

rad-gyres

calculating radii of gyration of proteins from .pdb files

18S191

Course 18.S191 at MIT, fall 2020 - Introduction to computational thinking with Julia:

corr-spec

simulation of 2D diffusion on a grid to understand fluorescence correlation spectroscopy (FCS)

hmms

decoding, evaluating and learning HMMs from a bioinformatics perspective

impact-fac

estimating the "impact" of JEB for 2018

prinia-project

methods to analyse multi-species bioacoustic datasets

stokes-flow

Fluid Dynamics Simulations in the Low Reynolds Number Regime

unityvr

Tools for analyzing data collected with a custom unity-based VR for insects.

brian2modelfitting

Model fitting toolbox for the Brian 2 simulator

finch-pack

PCB to record and amplify respiratory pressure in adult zebra finches

fly2p

small package with utility functions for analyzing (fly) calcium imaging data

future-of-foraging-seminars.github.io

hop-scotch

analysis of grasshopper escape response

image-annals

scripts written for an image-analysis course

jam-avoid

visualisation of the jamming avoidance response in weakly electric fish

janelia-unity-toolkit

Packages for the Unity game engine, emphasizing animal studies in VR.

mass-spec

Modelling Ion Traps and Mass Analyzers

mathbio_models

Repository of numerical implementations of mathematical models that I found and thought were pretty cool.

Modeller

Comparative homology modelling of SARSCov2 NSP4 subregion using Modeller

NMA-course-content

Summer course content for Neuromatch Academy

pandem-onion

visualising SIRS model of epidemic spread

recombinator

model of meiotic recombination

route-nav

Network Model of Route Navigation in Cataglyphis

songburst

Package to construct network models of songbird nucleus HVC

traja

Python tools for 2D spatial trajectory data

vrStim

Generation and analysis of visual stimuli used in fly virtual reality