Repository Index

Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications

• cell-annotation
• multiplexed-imaging
• mpif

Repository for paper scMulan: a multitask generative pre-trained language model for single-cell analysis.

• foundation-models
• gpt
• single-cell

The framework for quantification of neuronal anatomy

• neuroscience
• neuroanatomy-toolbox
• imagej
• imagej2

Run scripts, explore your genome, and get personalized explanations — all in natural dialogue.

• analysis
• claude
• claudecode
• dna

Classification and Gradient-based Localization of Chest Radiographs using PyTorch.

• fine-tuning
• vgg16
• resnet18
• densenet121

An Erlang implementation of the R*-tree spacial data structure

Tool for precise, interactive, fast and scalable FISH spot detection

Adaptive Graph Attention Auto-encoder for Spatial Domain Identification of Spatial Transcriptomics

Tiny header-only C++17 library for lat/lng geometry: distance, bearing, area, point-in-polygon and path proximity

• cpp
• geometry
• geospatial
• gis

An extensible .NET genetic algorithm library for optimization and artificial intelligence - Evolutionary computation and complex problem solving made simple

• artificial-intelligence
• csharp
• dotnet
• evolutionary-algorithm

A powerful library extending VBA with over 100 functions for math, stats, finance, and data manipulation. It supports matrix operations, and user-defined functions, enhancing automation and analysis within Microsoft Office and LibreOffice environments for data management, financial calculations, an more.

• equation-systems
• mathematical-expression-parser
• mathematical-expressions-evaluator
• determinant-calculation

Working with time-dependent networks in Julia

• graph
• evolving-graphs
• julia
• network

MCP server for spatial transcriptomics analysis through natural language interfaces.

• bioinformatics
• cell-communication
• deconvolution
• machine-learning

A Julia GraphQL client for seamless integration with a server

An arbitrary-precision decimal floating-point arithmetic package for Go

• decimal
• arbitrary-precision
• floating-point
• go

A cheminformatics extension for the SQLAlchemy database toolkit.

2D triangulation library. Allows translating lines and polygons (both based on points) to the language of GPUs.

• triangulation
• computational-geometry
• golang

Multi-stage Riemannian flow matching for physically valid molecular docking, with GNINA scoring, PoseBusters filtering, CLI inference, and benchmarks.

• alphafold3
• docking
• drug-design
• drug-discovery

NASA/JPL SPICE Toolkit for C – patched for cross-platform compatibility

• astronomy
• astronomical-algorithms
• celestial-mechanics
• nasa

Partial Commutative Monoids

• partial-commutative-monoid
• separation-logic
• coq
• coq-library

🛫 Fixed-Point Decimals

• encoding
• numerics
• performance
• go

Deciphering cell-cell communication from spatially resolved transcriptomic data at single-cell resolution with subgraph-based attentional graph neural network

A versatile single-cell cross-modality translation method via dual-aligned variational autoencoders

DE-9IM spatial predicate library implemented in Javascript.

• de-9im
• spatial
• predicates
• javascript