SWC/GCNU Neuroinformatics Unit

@neuroinformatics.dev

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Research Software Engineering team at the Sainsbury Wellcome Centre and Gatsby Computational Neuroscience Unit, UCL. We build open source software for neuroscience and machine learning. https://neuroinformatics.dev Posts by @adamltyson.com

Neuroinformatics Unit at FENS 2026 PS01-07AM-562 AN OPEN-SOURCE THREE-DIMENSIONAL DIGITAL BRAIN ATLAS OF THE MIGRATORY EURASIAN BLACKCAP N. Sirmpilatze1, A. Felder1, D. Abdulazhanova2,3, L. Schwigon2,3, I. Tatarnikov1, K. Haase2,3, I. Musielak2,3, T. Margrie1, H. Mouritsen2,3, D. Heyers2,3, A. Tyson1,4, S. Weiler1 PS05-09AM-022 HIGH-RESOLUTION 2-PHOTON MICROSCOPY-BASED RAT BRAIN ATLAS INTEGRATED INTO THE BRAINGLOBE ECOSYSTEM V.M. Plattner1,2, A. Felder2, N. Sirmpilatze2, A. Akrami1, A. L. Tyson2 PS05-09AM-023 MODERNISING AND EXPANDING BRAINGLOBE’S NEUROANATOMICAL ATLAS INFRASTRUCTURE A. Felder1, I. Tatarnikov1, H. Carey1,2, V. Plattner1, N. Sirmpilatze1, A. Tyson1 PS05-09AM-024 MAKING BRAINGLOBE MORE ACCESSIBLE: SUPPORTING PARTIAL BRAIN REGISTRATION AND ACCELERATING HIGH-THROUGHPUT CELL DETECTION I. Tatarnikov1, A. Felder1, M. Einhorn2, S. Hussain1, N. Sirmpilatze1, A. Tyson1 PS05-09AM-025 PHOTONMOSAIC: A FLEXIBLE, MODULAR AND INTEROPERABLE SOFTWARE FRAMEWORK FOR MULTIPHOTON I
Video showing typical usage of the datashuttle terminal user interface
Schematic summarising new path analysis functions, including "path straightness", "path deviation" and "directional change".
Interactive visualisation of driftmaps using driftplots
Demo of the datashuttle terminal user interface
Poster advertising the talk, with a photo of the speaker.
Screenshots from the new "Scale pose tracks to real-world units" showing the measurement of known lengths in a video.
Drawing of the "Aeon" project, an open-source platform to study the neural basis of ethological behaviours over naturalistic timescales.
The Google Summer of Code and Neuroinformatics Unit logos next to each other.
An overview of the Open Software Summer School 2026 schedule. There are two tracks in the first week, "Animals in Motion" and "Large Array Data". "BrainGlobe" and "Extracellular Electrophysiology" will be run in the second week.
An overview of the Open Software Summer School 2026 schedule. There are two tracks in the first week, "Animals in Motion" and "Large Array Data". "BrainGlobe" and "Extracellular Electrophysiology" will be run in the second week.
A schematic to show the combination of the SAM-2 model and scikit-image to analyse images of C. Elegans.
An overview of the Open Software Summer School 2026 schedule. There are two tracks in the first week, "Animals in Motion" and "Large Array Data". "BrainGlobe" and "Extracellular Electrophysiology" will be run in the second week. Each week starts with a symposium on the Monday afternoon, followed by 3 days of the course, and then a 2 days of collaboration, bringing together researchers and engineers to use, and improve neuroscience open source software.
Diagram of the previous, and updated implementation of displacement calculations.
An overview of the movement data processing pipeline, from data loading, filtering, viualisation and analysis.
The schedule of the open source summer school, showing the four tracks of Animals in Motion, Large array data, BrainGlobe & Extracellular Electrophysiology
Screenshot of the brainglobe-registration tool Saarah worked on during Google Summer of Code
The Google Summer of Code and Neuroinformatics logos together
Some of the summer school participants, gathered after the summer school hackday.
Open Software Week schedule, showing the three main tracks "Animals in Motion", "BrainGlobe' and"Big Imaging Data".
Open software week attendees in the lecture theatre at the Sainsbury Wellcome Centre, at an "Introduction to Python" workshop
Image showing a rotated multiphoton image of some cells being derotated by the derotation software.
movement logo, showing the word "movement" within stylised pose tracks
Screenshot showing bounding box visualisation in the movement napari plugin.
Schematic with an overview of the movement Python package. Shows ingestion of pose estimation, data, kinematic calculations and visualisation in napari.
Screenshot of the movement GUI, which allows you load tracked keypoint predictions from DeepLabCut/SLEAP/LightningPose, overlay them on your videos and interactively explore them.
Schematic overview of the movement behavioural analysis software package.