Deep and Machine Learning for Microscopy
- microscopy
- materials
- machine-learning
- materials-science
Repository Index
67,262 visible repositories in the index
97–120 of 147 · Most stars
Open Source SIEM (Security Information and Event Management system).
- siem
- risk-management
- risk-assessment
- vulnerability-management
A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data
PyTorch Connectomics: segmentation toolbox for EM connectomics
- computer-vision
- neuroscience
- connectomics
- pytorch
A Python interface to access neuroanatomical atlases
- neuroscience
- python
- microscopy
- registration
Make AI output sound human. Strips AI-isms (sycophancy, stock vocab, hedging stacks, em-dash pileups), preserves code/URLs/headings. Plugin for Claude Code, Cursor, Windsurf, Codex, Cline, Copilot, Gemini.
- ai-detection
- ai-plugin
- anti-slop
- claude-code
Non-comprehensive list of projects and resources related to open microscopy.
Read and write Neuroglancer datasets programmatically.
- neuroglancer
- volumetric-data
- python
- cloud
Automated 3D brain registration with support for multiple species and atlases.
- registration
- atlases
- brain
- neuroscience
A collection of tools for painting super-resolution images
- microscopy
- super-resolution
- smlm
- dna-paint
Save up to 30% of your AI coding tokens. Scubiee turns any codebase into searchable context for your AI coding agent. A local context engine for Cursor, Claude Code, Copilot, Codex, and more: semantic search, code relationships, live sync, MCP integration, and code that never leaves your machine.
TranslatedSay "¥35, not spicy, no ice" → one answer + a copyable order card. Official calculate-price only. Zero-dependency MCP skill. McDonald's ordering Skill.
Accurate and efficient spot detection for microscopy data
Python package for image-based profiling
- cytominer
- microscopy
- morphological-profiling
- python
Security linter for AI-generated code: catches the exact vulnerabilities Copilot, Cursor and ChatGPT repeatedly produce. SQL injection, hardcoded secrets, JWT bypass, command injection and 15+ more rules. Grade A–F. Zero config. CI/CD ready.
Mock an SSH server and define all commands it supports (Python, Twisted)
Axon/Myelin segmentation using Deep Learning
- deep-learning
- machine-learning
- myelin
- axon
Universal LLM router for AI coding tools. Works with Claude Code, Cursor, Codex, Gemini CLI, Copilot and more. Free-first fallback chain cuts costs 35-80%.
- ai-routing
- anthropic
- claude
- claude-code
御枢 · AegisOps — AI 安全运营工作台：告警研判、应急响应、漏洞整改，连接 Atlas、模型、工具与工作流。
- ai-agents
- secops
- security-operations
- vulnerability-management
The python-microscopy environment - an open-source package for light microscopy
Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy
- biology
- fluorescence
- image-analysis
- image-processing
python functions for simulating optical transfer functions
- microscopy
- numpy
Your own clipboard in the cloud, copy and paste text with gist between systems !!
Gaussian processes and Bayesian optimization for images and hyperspectral data
- image-processing
- hyperspectral-images
- gaussian-processes
- bayesian-optimization