caped-ai

Mother package of oneat and vollseg algorithms. Combining the mix of both to create image analysis workflows.

caped-ai-augmentations

Augmentation library built on top of albumentations for augmentation of segmentation and classification catasets. Available via pip package caped-ai-augmentations

caped-ai-cellpose3d

caped-ai-deftrack

caped-ai-metrics

Metrics for instance segmentation and static and action classification. Available via pip package caped-ai-metrics.

caped-ai-mtrack

Ransac based methods for function fitting on Microtubule Kymographs

caped-ai-mtrack_vollseg_kymo

caped-ai-oneat

oneat = Open Network for Event as Action Topologies. Available via pip package oneat

caped-ai-sentinal

caped-ai-skeletonize

caped-ai-tabulour

caped-ai-visualizations

Visualization library for bounding boxes, activation maps of vollseg segmentation and oneat classification networks. Available via pip package caped-ai-visualizations.

caped-ai-visualizations-napari

Napari plugin for visualizing oneat detections

caped-ai-vollseg-napari

caped-test-deploy

cellpose

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

cookiecutter-kapoorlabs-napari-plugin

Cookiecutter template for generating KapoorLabs written Napari plugins.

cookiecutter-template

Cookiecutter for pypi packages

fourier_neural_operator

Use Fourier transform to learn operators in differential equations.

kapoorlabs-caped

kapoorlabs-lightning

napari-hub-collections

collections of plugins for the napari hub

napatrackmater

Napari Visualization tool for Trackmate > 6.0 and bTrackmate XML files for 2/3D + time tracks. Available via pip package napatrackmater.

nellie-actin-tubules

Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy

python-microscopy

The python-microscopy environment - an open-source package for light microscopy

quartic-solver

segment-anything

The repository provides code for running inference with the SegmentAnything Model (SAM), links for downloading the trained model checkpoints, and example notebooks that show how to use the model.

server-setup-scripts

The SSS of setting up things on remote linux servers, AWS servers

tabulour

A table data viewer for Python

trackmate

TrackMate is your buddy for your everyday tracking.