NCBI - National Center for Biotechnology Information/NLM/NIH

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162 repositories

ncbi-logging
Public
Log monitoring and gathering infrastructure to feed analytics
C++
•9•10•0•2•Updated Dec 31, 2025Dec 31, 2025
sra-tools
Public
SRA Tools
C
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Other
•269•1.3k•22•8•Updated Dec 31, 2025Dec 31, 2025
ncbi-cxx-toolkit-public
Public
NCBI C++ Toolkit package sources
C++
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Other
•38•84•2•0•Updated Dec 31, 2025Dec 31, 2025
icn3d
Public
web-based protein structure viewer and analysis tool interactively or in batch mode
nodejs delphi webgl vr ar jupyter-notebook chemical protein snp nucleotide
JavaScript
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Other
•52•169•6•2•Updated Dec 30, 2025Dec 30, 2025
tree-tool
Public
Incremental building of phylogenetic distance trees
bioinformatics evolution phylogenetic-trees data-analysis distance-measures bioinformatics-tool
HTML
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Other
•10•27•0•0•Updated Dec 29, 2025Dec 29, 2025
cxx-toolkit
Public
HTML
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The Unlicense
•52•20•0•1•Updated Dec 29, 2025Dec 29, 2025
ncbi-vdb
Public
ncbi-vdb
C
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Other
•42•92•9•2•Updated Dec 22, 2025Dec 22, 2025
egapx
Public
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Nextflow
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Other
•19•173•10•0•Updated Dec 16, 2025Dec 16, 2025
vadr
Public
Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
Perl
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Other
•27•111•10•0•Updated Dec 12, 2025Dec 12, 2025
datasets
Public
NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.
ncbi genomics-data
Jupyter Notebook
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Other
•56•494•18•2•Updated Dec 12, 2025Dec 12, 2025
amr
Public
AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
bioinformatics genomics pathogen antibiotic-resistance
C++
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Other
•47•342•9•0•Updated Dec 9, 2025Dec 9, 2025
stxtyper
Public
StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
bioinformatics genomics pathogen escherichia-coli bioinformatics-tool virulence-genes
C++
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Other
•7•17•1•0•Updated Dec 9, 2025Dec 9, 2025
docker
Public
Dockerfile
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Other
•34•53•2•0•Updated Dec 6, 2025Dec 6, 2025
pm4ngs
Public
Project Manager for NGS data analysis
bioinformatics next-generation-sequencing rnaseq ngs-analysis ngs-pipeline cwl-workflow chipseq chipexo
Python
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Other
•10•30•0•1•Updated Dec 6, 2025Dec 6, 2025
ncbi-vdb-conan
Public
Conan package recipe for NCBI VDB Toolkit
Python
•1•0•0•0•Updated Dec 3, 2025Dec 3, 2025
ngs-tools
Public
C++
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Other
•25•107•7•4•Updated Dec 3, 2025Dec 3, 2025
ncbi-cxx-toolkit-conan
Public
NCBI C++ Toolkit package recipe
Python
•10•10•0•0•Updated Dec 1, 2025Dec 1, 2025
EvoGeneX
Public
This repository contains the source code of the R package for EvoGeneX, a software to infer the mode of evolution from the gene expression data.
HTML
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GNU General Public License v3.0
•6•28•3•0•Updated Dec 1, 2025Dec 1, 2025
elastic-blast
Public
ElasticBLAST is a cloud-based tool to perform your BLAST searches faster and make you more effective
bioinformatics blast ncbi
Python
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Other
•19•64•3•0•Updated Nov 28, 2025Nov 28, 2025
elastic-blast-docs
Public
ElasticBLAST documentation
Other
•5•5•0•0•Updated Nov 26, 2025Nov 26, 2025
SpacePhenotyper
Public
Jupyter Notebook
•0•3•0•0•Updated Nov 24, 2025Nov 24, 2025
SSDraw
Public
JavaScript
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Other
•11•86•2•0•Updated Nov 18, 2025Nov 18, 2025
pgap
Public
NCBI Prokaryotic Genome Annotation Pipeline
Common Workflow Language
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Other
•94•362•0•0•Updated Nov 13, 2025Nov 13, 2025
workshop-sra-hands-on
Public
SRA Outreach to the NIH Research Festival and ASHG 2025
0•1•0•0•Updated Sep 10, 2025Sep 10, 2025
pubchem-align3d
Public
This is a generic C++ library that can be used to rapidly align two small molecules in 3D space, with shape - and optionally color - Tanimoto scoring. Included is a sample RDKit application whereby any two SDF-format chemicals are read in and aligned.
C++
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Other
•4•14•1•0•Updated Sep 3, 2025Sep 3, 2025
International-Protein-Nomenclature-Guidelines
Public
International Protein Nomenclature Guidelines
7•1•0•0•Updated Aug 20, 2025Aug 20, 2025
CF-random_software
Public
Prediction of alternative conformation and fold-switching proteins with ColabFold
Python
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Other
•2•8•0•0•Updated Aug 19, 2025Aug 19, 2025
cwl-ngs-workflows-cbb
Public
A set of CWL tools and workflows used by NCBI Computational Biology Branch for NGS data analysis
ngs ngs-analysis ngs-pipeline cwl-workflow
Common Workflow Language
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Other
•10•26•0•0•Updated Aug 7, 2025Aug 7, 2025
clinvar
Public
ClinVar aggregates information about genomic variation and its relationship to human health. Contact us at '[email protected]' with any questions or comments.
HTML
•17•82•4•0•Updated Jul 30, 2025Jul 30, 2025
rnaseq_gene_counts
Public
RNAseq gene counts
0•0•0•0•Updated Jul 25, 2025Jul 25, 2025