A Python type checker
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Pure Python library for reading NIS Elements ND2 images and metadata
- nd2
- pims
- nikon
- nis-elements
ZetaStitcher is a tool designed to stitch large volumetric images such as those produced by Light-Sheet Fluorescence Microscopes.
- stitching
- microscopy
- microscopy-images
- fluorescence-microscopy-imaging
Display the behaviour of a realtime program with a scope or logic analyser.
Generate your license. Yet another lice, but implement with Jinja2 and docopt.
A foundation model-driven whole slide image-scale cell phenotyping method with QuPath integration Resources
- bioimage-analysis
- cell-classification
- computer-vision
- digital-pathology
Python3 script that transfers files in Google Colab 10-50x faster, using multi-threaded parallel copying between Google Drive locations.
- colab-notebook
- multithreading
- parallel-computing
- copy
Lattice light-sheet post-processing utility.
- microscopy
- light-sheet
- image-processing
- image-analysis
Noise Correction Algorithm for sCMOS cameras
- cmos
- imaging
- noise
- readout
Enterprise-grade platform to generate and execute Cypress, Playwright, WebdriverIO, and Appium end-to-end tests from natural language requirements. (Appium is experimental and requires external mobile infrastructure.)
Single-cell fluorescence microscopy data analysis
- microscopy
- fluorescence-microscopy-imaging
An interactive image processing program for biologists written in Python.
- biologists
- python
- imagej
- calcium
A repo-native coding-agent loop harness for Claude, Codex, Copilot, and other CLI agents. Agents can edit. Gates decide what lands. You set the plan in motion. The agents take a prompt, and each iteration must update specs and commit through guardrails.
Accurate segmentation of bacterial microscope images using deep learning synthetically generated image data.
- microscopy
- image-processing
- segmentation
- biology
Inserts commented open source software licenses into source code.
- developer-tools
- development-utility
- development-workflow
- development
🛡️ Static security scanner (SAST) for Ansible playbooks, roles, and collections. 1,000+ rules across 30+ categories detecting malicious code, RCE, hardcoded credentials, and supply-chain risk. Outputs SARIF, CycloneDX SBOM, and GitLab SAST. SLSA Build Level 3, Sigstore-signed.
- ansible
- ansible-playbook
- devsecops
- infrastructure-as-code
A Python package to analyze matrix fiber orientation and intensity around cells as a proxy for cellular forces. Also measures alignment relative to X/Y axes, points and lines, with optional masks, a Python API and browser tools for analysis and group comparisons.
- contractility
- orientation
- fibrosis
- mechanobiology
Copy a pandas DataFrame to the clipboard with one click
[DEPRECATED] A package for storing morphological profiling data.
🔬Python package for high-throughput single-cell imaging analysis.
- microscopy-image-analysis
- single-cell-analysis
X Audio Copy - GTK and GNOME application for ripping CD-Audio and encoding in lossy and lossless audio formats.
Panoptic segmentation algorithms for 2D and 3D electron microscopy images
- deep-learning
- semantic-segmentation
- segmentation
- pytorch
Python library for statistical analysis of mRNA and protein distributions in fluorescent microscopy images
A simple micropython library for LC709293F Fuel Gauge