Stars
SimBA (Simple Behavioral Analysis), a pipeline and GUI for developing supervised behavioral classifiers
smidm / simba
Forked from sgoldenlab/simbaSimBA (Simple Behavioral Analysis), a plug-and-play pipeline and GUI for developing supervised behavioral classifiers
3D plotting and mesh analysis through a streamlined interface for the Visualization Toolkit (VTK)
Webcam, PiCamera streaming over the network with Python made easy.
A gui for browsing joint calcium imaging + behavioral data.
Self-Supervised Noise Embeddings (Self-SNE)
Rearing classifier for mouse in open field arena with 8 body parts labelled
Closed-loop behavioral experiment toolkit using pose estimation of body parts.
Detection of Objects and tracking Research Interactive Software
ClearMap is a python toolbox for the analysis and registration of volumetric data from cleared tissues.
Official implementation of DeepLabCut: Markerless pose estimation of user-defined features with deep learning for all animals incl. humans
Variational Animal Motion Embedding - A tool for time series embedding and clustering
A deep learning framework for multi-animal pose tracking.
ClearMap 2 with WobblyStitcher, TubeMap and CellMap
Various scripts to support deeplabcut and what to do afterwards!
A Python interface to access neuroanatomical atlases
A Python package to visualise neuroanatomical data in atlas space
An open access book on scientific visualization using python and matplotlib
Automated 3D cell detection in very large images
Behavioral segmentation of open field in DeepLabCut, or B-SOID ("B-side"), is a pipeline that pairs unsupervised pattern recognition with supervised classification to achieve fast predictions of be…
📝 Markdown code for lots of small badges 🎀 📌 (shields.io, forthebadge.com etc) 😎. Contributions are welcome! Please add yours!
Semi-manual alignment to reference templates (SMART): An open source pipeline in R for whole brain mapping