Repositories list

• egapx

  Public

  ncbi/egapx’s past year of commit activity
  Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation

  Nextflow

  •

  Other

  •2121 forks•188188 stars•99 issues•00 pull requests•Updated Apr 20, 2026Apr 20, 2026

• ncbi-cxx-toolkit-public

  Public

  ncbi/ncbi-cxx-toolkit-public’s past year of commit activity
  NCBI C++ Toolkit package sources

  C++

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  Other

  •4444 forks•9696 stars•33 issues•11 pull request•Updated Apr 20, 2026Apr 20, 2026

• sra-tools

  Public

  ncbi/sra-tools’s past year of commit activity
  SRA Tools

  C

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  Other

  •279279 forks•1.3k1.3k stars•2424 issues•99 pull requests•Updated Apr 17, 2026Apr 17, 2026

• ncbi-vdb

  Public

  ncbi/ncbi-vdb’s past year of commit activity
  ncbi-vdb

  C

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  Other

  •4242 forks•9797 stars•99 issues•11 pull request•Updated Apr 17, 2026Apr 17, 2026

• tree-tool

  Public

  ncbi/tree-tool’s past year of commit activity
  Incremental building of phylogenetic distance trees

  bioinformaticsevolutionphylogenetic-trees+ 3

  bioinformaticsevolutionphylogenetic-treesdata-analysisdistance-measuresbioinformatics-tool

  HTML

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  Other

  •1010 forks•3131 stars•00 issues•00 pull requests•Updated Apr 16, 2026Apr 16, 2026

• ncbi-cxx-toolkit-conan

  Public

  ncbi/ncbi-cxx-toolkit-conan’s past year of commit activity
  NCBI C++ Toolkit package recipe

  Python

  •1111 forks•1212 stars•00 issues•00 pull requests•Updated Apr 15, 2026Apr 15, 2026

• icn3d

  Public

  ncbi/icn3d’s past year of commit activity
  web-based protein structure viewer and analysis tool interactively or in batch mode

  nodejsdelphiwebgl+ 13

  nodejsdelphiwebglvrarjupyter-notebookchemicalproteinsnpnucleotide+ 6

  JavaScript

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  Other

  •5353 forks•172172 stars•77 issues•22 pull requests•Updated Apr 15, 2026Apr 15, 2026

• dbvar

  Public

  ncbi/dbvar’s past year of commit activity
  dbVar

  structuralvariationdbvar

  structuralvariationdbvar

  1414 forks•4141 stars•88 issues•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• cxx-toolkit

  Public

  ncbi/cxx-toolkit’s past year of commit activity
  HTML

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  The Unlicense

  •5252 forks•2121 stars•00 issues•00 pull requests•Updated Apr 9, 2026Apr 9, 2026

• datasets

  Public

  ncbi/datasets’s past year of commit activity
  NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.

  ncbigenomics-data

  ncbigenomics-data

  Jupyter Notebook

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  Other

  •6161 forks•528528 stars•2020 issues•22 pull requests•Updated Apr 6, 2026Apr 6, 2026

• amr

  Public

  ncbi/amr’s past year of commit activity
  AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.

  bioinformaticsgenomicspathogen+ 1

  bioinformaticsgenomicspathogenantibiotic-resistance

  C++

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  Other

  •5050 forks•359359 stars•99 issues•00 pull requests•Updated Mar 29, 2026Mar 29, 2026

• blast_plus_docs

  Public

  ncbi/blast_plus_docs’s past year of commit activity
  3333 forks•119119 stars•55 issues•11 pull request•Updated Mar 24, 2026Mar 24, 2026

• ncbi-logging

  Public

  ncbi/ncbi-logging’s past year of commit activity
  Log monitoring and gathering infrastructure to feed analytics

  C++

  •1111 forks•1515 stars•00 issues•22 pull requests•Updated Mar 24, 2026Mar 24, 2026

• ncbi-vdb-conan

  Public

  ncbi/ncbi-vdb-conan’s past year of commit activity
  Conan package recipe for NCBI VDB Toolkit

  Python

  •11 fork•11 star•00 issues•00 pull requests•Updated Mar 20, 2026Mar 20, 2026

• sra-tutorials

  Public

  ncbi/sra-tutorials’s past year of commit activity
  Tutorials and guides for using the Sequence Read Archive

  MIT License

  •00 forks•33 stars•00 issues•00 pull requests•Updated Mar 11, 2026Mar 11, 2026

• ngs-tools

  Public

  ncbi/ngs-tools’s past year of commit activity
  C++

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  Other

  •2525 forks•110110 stars•77 issues•44 pull requests•Updated Mar 10, 2026Mar 10, 2026

• GNorm2

  Public

  ncbi/GNorm2’s past year of commit activity
  Java

  •1111 forks•2828 stars•77 issues•00 pull requests•Updated Feb 23, 2026Feb 23, 2026

• clinvar

  Public

  ncbi/clinvar’s past year of commit activity
  ClinVar aggregates information about genomic variation and its relationship to human health. Contact us at 'clinvar@ncbi.nlm.nih.gov' with any questions or…

  HTML

  •1616 forks•8383 stars•44 issues•00 pull requests•Updated Feb 19, 2026Feb 19, 2026

• ncbi_doc_template

  Public

  ncbi/ncbi_doc_template’s past year of commit activity
  CSS

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  The Unlicense

  •66 forks•44 stars•00 issues•00 pull requests•Updated Feb 11, 2026Feb 11, 2026

• pgap

  Public

  ncbi/pgap’s past year of commit activity
  NCBI Prokaryotic Genome Annotation Pipeline

  Common Workflow Language

  •

  Other

  •9494 forks•375375 stars•00 issues•00 pull requests•Updated Feb 9, 2026Feb 9, 2026

• elastic-blast

  Public

  ncbi/elastic-blast’s past year of commit activity
  ElasticBLAST is a cloud-based tool to perform your BLAST searches faster and make you more effective

  bioinformaticsblastncbi

  bioinformaticsblastncbi

  Python

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  Other

  •2222 forks•6969 stars•33 issues•00 pull requests•Updated Jan 29, 2026Jan 29, 2026

• docker

  Public
  Dockerfile

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  Other

  •3434 forks•5454 stars•22 issues•00 pull requests•Updated Jan 22, 2026Jan 22, 2026

• redenovo

  Public

  ncbi/redenovo’s past year of commit activity
  Python

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  MIT License

  •00 forks•22 stars•00 issues•00 pull requests•Updated Jan 18, 2026Jan 18, 2026

• stxtyper

  Public

  ncbi/stxtyper’s past year of commit activity
  StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.

  bioinformaticsgenomicspathogen+ 3

  bioinformaticsgenomicspathogenescherichia-colibioinformatics-toolvirulence-genes

  C++

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  Other

  •66 forks•1616 stars•11 issue•00 pull requests•Updated Dec 9, 2025Dec 9, 2025

• EvoGeneX

  Public

  ncbi/EvoGeneX’s past year of commit activity
  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

  •66 forks•2929 stars•33 issues•00 pull requests•Updated Dec 1, 2025Dec 1, 2025

• elastic-blast-docs

  Public

  ncbi/elastic-blast-docs’s past year of commit activity
  ElasticBLAST documentation

  Other

  •55 forks•55 stars•00 issues•00 pull requests•Updated Nov 26, 2025Nov 26, 2025

• SpacePhenotyper

  Public

  ncbi/SpacePhenotyper’s past year of commit activity
  Jupyter Notebook

  •00 forks•33 stars•11 issue•00 pull requests•Updated Nov 24, 2025Nov 24, 2025

• SSDraw

  Public

  ncbi/SSDraw’s past year of commit activity
  JavaScript

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  Other

  •1212 forks•8989 stars•22 issues•00 pull requests•Updated Nov 18, 2025Nov 18, 2025

• workshop-sra-hands-on

  Public

  ncbi/workshop-sra-hands-on’s past year of commit activity
  SRA Outreach to the NIH Research Festival and ASHG 2025

  00 forks•22 stars•00 issues•00 pull requests•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 …

  C++

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  Other

  •44 forks•1616 stars•11 issue•00 pull requests•Updated Sep 3, 2025Sep 3, 2025