Neurokernel Project

MuJoCo fruit fly body model and locomotion RL tasks

The home of the Drosophila anatomy ontology

Transforms for navis that enable mapping between different Drosophila template brains.

Embodied Drosophila: 138,639-neuron whole-brain connectome simulation (FlyWire v783) in a biomechanical body (NeuroMechFly v2 / MuJoCo). Vision, olfaction, gustation, flight, and emergent behaviors — all from the real connectome.

FreeClimber is a background-subtracting particle detection platform designed to quantify group climbing performance in a Drosophila negative geotaxis (climbing) assay

The home of the FlyBase miscellaneous ontologies - incorporating the Drosophila Phenotype Ontology (see also FlyBase/drosophila-phenotype-ontology)

Supplemental source code for Nern et al. 2025: "Connectome-driven neural inventory of a complete visual system" (https://doi.org/10.1038/s41586-025-08746-0). The Cell type explorer repository is at https://github.com/reiserlab/male-drosophila-visual-system-connectome

Dreye: Receptor Space Manipulation

Python package for analysis of FIMTrack data

Barton and Zeng (2018) - Pipeline and scripts for popgen analysis of whole-genome drosophila data.

The home of the Drosophila developmental ontology, an ontology of Drosophila melanogaster developmental stages.

R package flycircuit

EM/LM neuron search

Flyalyzer fruit fly kinematics tracker for matlab

🔬 Assemble Drosophila melanogaster with ABySS

A multi-omics web app for Drosophila tissues

[no longer supported] for a more powerful version of this that supports multiple channels and uses machine learning, look here ➡️

Bio-inspired spiking-neural-network framework on an autonomous robot car.

Single cell resolution 3D imaging and segmentation within intact live tissues