bioinformatics
Repositories (1500)
tools for reading, writing, generating, merging, and remapping SNPs
modular & open DIA search
R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development version only)
:package: An R package for accessing genomics data from UCSC Xena platform, from cancer multi-omics to single-cell RNA-seq https://cran.r-project.org/...
CUT&RUN and CUT&Tag data processing and analysis
Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
OWLTools
DEEPScreen: Virtual Screening with Deep Convolutional Neural Networks Using Compound Images
Dotplot large Genomes in an Interactive, Efficient and Simple way
ClairS: a deep-learning method for long-read tumor–normal pair somatic small variant calling
Interface for the Basic Local Alignment Search Tool (BLAST) - R-Package
Falsification-Driven Biological Law Engine 2026 — Rejected 194 of 203 Candidates
Python tool for alignment of spatial transcriptomics (ST) data using diffeomorphic metric mapping
A Python package for CD-HIT, clustering protein or nucleotide sequences.
Accurate and flexible loops calling tool for 3D genomic data.
Rapid Profiling and Deconvolution Tool for Metagenomes
Rust bindings to minimap2 library
Config files used to define parameters specific to compute environments at different Institutions
A Low-cost Open-source High-speed Multi-camera Motion Capture System.
Demonstrating best practices for bioinformatics command line tools
nucleosome calling using ATAC-seq
GNU-Make-like utility for managing builds and complex workflows
DashTools - Plotly Dash Command Line Tools - Create, Run and Deploy Templated Python Apps from Terminal
This is the repo of the medical dialogue dataset 'imcs21' in CBLUE@Tianchi
FastQC port to Qt5: A quality control tool for high throughput sequence data.
CCTyper: Automatic detection and subtyping of CRISPR-Cas operons
Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
Python 3 library with good support for both reading and writing VCF
📚书：R语言零基础入门
BUSCO_Phylogenomics | Pipeline to construct species phylogenies using BUSCO proteins
The Ontology for Biomedical Investigations
Simple FASTQ quality assessment using Python
Fast hash function for DNA/RNA sequences
my solutions to problems from Rosalind.
verifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
Large Multi-Modal Chem-Informatics dataset of 7B+ molecules with fingerprints and 3D conformers for drug discovery
Sequence Indexing and Search
De novo assembly based variant calling pipeline for Illumina short reads
Affinity Protein-Protein Transformers—State of the art protein-protein binding affinity in seconds!
CASSIA: A Multi-Agent LLM-Based Single-Cell Cell Type Annotation Framework
bioinformatics toolkit in rust
Efficient variant-call data storage and retrieval library using the TileDB storage library.
ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), t...
trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length seq...
Open source bioinformatics and computational biology toolbox written in F#. This is the core package containing type models and parsers/writers.
☁️Haven GRC - easier governance, risk, and compliance 👨⚕️👮♀️🦸♀️🕵️♀️👩🔬
A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA
WtP: Phage identification via nextflow and docker or singularity
Quantum Mechanical Bespoke Force Field Derivation Toolkit
Split k-mer analysis – version 2