This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.
Repository Index
78,351 visible repositories in the index
25–48 of 80 · Most stars
A library of free open source icons for science illustrations in biology and chemistry
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
- bioinformatics
- sequence-alignment
- genomics
- fm-index
Open source tools for computational pathology - Nature BME
- histopathology
- pathology
- weakly-supervised-learning
- whole-slide-imaging
C++ library to develop competitive programming problems
- codeforces
- contests
- icpc
- ioi
Play mp3 files from SD via I2S
- esp32
- max98357a
- i2s
- mp3
StarDist - Object Detection with Star-convex Shapes
- bioimage-analysis
- cell-segmentation
- nuclei-segmentation
- object-detection
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
- drug-repurposing
- deep-learning
- drug-target-interactions
- toolkit
🦖 ClawBio - The first bioinformatics-native AI agent skill library. Local-first. Reproducible. Open. Free.
- ai-agents
- bioinformatics
- equity
- genomics
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
Cloud-native genomic dataframes and batch computing
- genetics
- vcf
- genomics
- gwas
ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.
C library for high-throughput sequencing data formats
- htslib
- bioinformatics
- sam
- bam
Plant phenotyping with image analysis
- science
- bioinformatics
- image-analysis
- plant-phenotyping
Precision Medicine Knowledge Graph (PrimeKG)
- knowledge-graph
- precision-medicine
- therapeutics
- bioinformatics
Python package for graph neural networks in chemistry and biology
- deep-learning
- graph-neural-networks
- dgl
- cheminformatics
In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more
- dna
- k-mer
- python
- bloom-filter
Segment Anything for Microscopy
- microscopy-images
- segment-anything
- segmentation
- cell-segmentation
A Go package for engineering organisms.
- synthetic-biology
- synbio
- genetic-engineering
- molecular-biology
Interactive network visualization in Python and Dash, powered by Cytoscape.js
- plotly-dash
- plotly
- dash
- cytoscape
The Chemistry Development Kit
- code4lib
- chemistry
- java
- cheminformatics
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
- sequence-alignment
- edit-distance
- levehnstein-distance
- library
MIBlurPopup lets you create popups with a blurred background
- popup
- alert
- blur
- blurview
Vision-Language Pathology Foundation Model - Nature Medicine
- bioimage-analysis
- bioimage-informatics
- conch
- foundation-model