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Adam Tyson

Username    adamltyson
Date joined   Joined

56 projects

NeuralPlayground

Last released

The standardised environment for the hippocampus and entorhinal cortex models

cellfinder

Last released

Automated 3D cell detection in large microscopy images

brainglobe-atlasapi

Last released

A lightweight python module to interact with and generate atlases for systems neuroscience.

brainglobe-stitch

Last released

A tool to stich large tiled datasets generated by the mesoSPIM.

brainrender

Last released

Visualisation and exploration of brain atlases and other anatomical data

datashuttle

Last released

DataShuttle automates the creation, validation and transfer of neuroscience project folders.

brainglobe-segmentation

Last released

Segmentation of anatomical structures in a common coordinate space

fancylog

Last released

Fancier logging in Python

movement

Last released

Analysis of body movement

morphapi

Last released

A lightweight python package to download neuronal morphologies

brainglobe-heatmap

Last released

Rendering anatomical heatmaps with brainrender and matplotlib

brainglobe-utils

Last released

Shared general purpose tools for the BrainGlobe project

brainglobe

Last released

Python-based tools for computational neuroanatomy.

brainrender-napari

Last released

A napari plugin to render BrainGlobe atlases and associated data as layers.

brainglobe-workflows

Last released

A collection of end-to-end data analysis workflows executed using BrainGlobe tools.

brainreg

Last released

Automated multi-atlas whole-brain microscopy registration

derotation

Last released

Derotate images acquired via 2-photon or 3-photon calcium imaging

brainglobe-space

Last released

Anatomical space conventions made easy

poseinterface

Last released

Run pose estimation across frameworks

openbioglobe

Last released

OpenBioGlobe

brainglobe-napari-io

Last released

Read and write files from the BrainGlobe computational neuroanatomy suite into napari

imio

Last released

Loading and saving of image data.

ethology

Last released

Data processing tools for animal behavioural analysis

brainglobe-template-builder

Last released

Build unbiased anatomical templates from individual images

bg-atlasapi

Last released

A lightweight python module to interact with atlases for systems neuroscience

brainreg-napari

Last released

Multi-atlas whole-brain microscopy registration

cellfinder-napari

Last released

Efficient cell detection in large images

cellfinder-core

Last released

Automated 3D cell detection in large microscopy images

brainmapper

Last released

Whole brain cell detection and atlas registration

slurmio

Last released

Python tools to read SLURM job parameters

brainreg-segment

Last released

Manual segmentation of 3D brain structures in a common anatomical space

bgheatmap

Last released

Brain regions heatmaps in brainrender

WAZP

Last released

Wasp Animal-tracking Zoo project with Pose estimation

cellshape-cluster

Last released

3D shape analysis using deep learning

cellshape-cloud

Last released

3D cell shape analysis using geometric deep learning on point clouds

cellfinder-visualize

Last released

Cellfinder output visualization

python-packaging-at

Last released

Example of how to package Python projects

cellshape-voxel

Last released

3D shape analysis using deep learning

bg-space

Last released

Anatomical space conventions made easy

build-test-at

Last released

A simple Python package

slidebook-python

Last released

Open slidebook .sldy files in Python

synchro

Last released

Customisable file transfers using rsync

cordmap

Last released

imlib

Last released

General data processing functions

napari-brainreg-standard

Last released

Visualise brainreg registration output in standard space

brainio

Last released

Loading and saving of brain imaging data.

bgviewer

Last released

Visualisation and exploration of brain atlases

amap

Last released

Automated mouse atlas propagation

bgspace

Last released

Anatomical space conventions made easy

brainatlas-api

Last released

A lightweight python module to interact with atlases for systems neuroscience

spikey

Last released

Electrophysiology analysis

slicereg

Last released

Registration of 2D sections to a 3D volume

brainrender-test

Last released

Python scripts to use Allen Brain Map data for analysis and rendering

surfcut

Last released

Cutting confocal stacks at various depths relative to surface signal

cellfinder-analyst

Last released

Group level analysis of cellfinder results.

micrometa

Last released

Reading of microscopy metadata

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