Repositories list

• 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

  •4848 forks in ncbi/ncbi-cxx-toolkit-public•104104 stars in ncbi/ncbi-cxx-toolkit-public•22 issues in ncbi/ncbi-cxx-toolkit-public•00 pull requests in ncbi/ncbi-cxx-toolkit-public•Updated Oct 30, 2026Oct 30, 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

  •5151 forks in ncbi/amr•391391 stars in ncbi/amr•1111 issues in ncbi/amr•00 pull requests in ncbi/amr•Updated Oct 29, 2026Oct 29, 2026

• ncbi-logging

  Public

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

  C++

  •1010 forks in ncbi/ncbi-logging•1515 stars in ncbi/ncbi-logging•00 issues in ncbi/ncbi-logging•00 pull requests in ncbi/ncbi-logging•Updated Oct 29, 2026Oct 29, 2026

• sra-tools

  Public

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

  C

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  Other

  •282282 forks in ncbi/sra-tools•1.4k1.4k stars in ncbi/sra-tools•2424 issues in ncbi/sra-tools•99 pull requests in ncbi/sra-tools•Updated Oct 29, 2026Oct 29, 2026

• SKESA

  Public

  ncbi/SKESA’s past year of commit activity
  SKESA assembler

  C++

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  Other

  •2323 forks in ncbi/SKESA•128128 stars in ncbi/SKESA•2020 issues in ncbi/SKESA•22 pull requests in ncbi/SKESA•Updated Oct 29, 2026Oct 29, 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

  •1212 forks in ncbi/tree-tool•3535 stars in ncbi/tree-tool•00 issues in ncbi/tree-tool•00 pull requests in ncbi/tree-tool•Updated Oct 28, 2026Oct 28, 2026

• ncbi-vdb

  Public

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

  C

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  Other

  •4949 forks in ncbi/ncbi-vdb•105105 stars in ncbi/ncbi-vdb•1010 issues in ncbi/ncbi-vdb•55 pull requests in ncbi/ncbi-vdb•Updated Oct 28, 2026Oct 28, 2026

• cxx-toolkit

  Public

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

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  The Unlicense

  •5656 forks in ncbi/cxx-toolkit•2222 stars in ncbi/cxx-toolkit•00 issues in ncbi/cxx-toolkit•00 pull requests in ncbi/cxx-toolkit•Updated Oct 27, 2026Oct 27, 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

  •7070 forks in ncbi/datasets•563563 stars in ncbi/datasets•2323 issues in ncbi/datasets•22 pull requests in ncbi/datasets•Updated Oct 26, 2026Oct 26, 2026

• workshop-asm-big-2026

  Public

  ncbi/workshop-asm-big-2026’s past year of commit activity
  Empowering Your Microbial Research With Expert Tools and Resources: Unlock the Power of NCBI Data

  Jupyter Notebook

  •11 fork in ncbi/workshop-asm-big-2026•22 stars in ncbi/workshop-asm-big-2026•00 issues in ncbi/workshop-asm-big-2026•00 pull requests in ncbi/workshop-asm-big-2026•Updated Oct 23, 2026Oct 23, 2026

• sra-tutorials

  Public

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

  Jupyter Notebook

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  MIT License

  •11 fork in ncbi/sra-tutorials•44 stars in ncbi/sra-tutorials•00 issues in ncbi/sra-tutorials•11 pull request in ncbi/sra-tutorials•Updated Oct 22, 2026Oct 22, 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

  •5252 forks in ncbi/icn3d•177177 stars in ncbi/icn3d•77 issues in ncbi/icn3d•33 pull requests in ncbi/icn3d•Updated Oct 20, 2026Oct 20, 2026

• ncbi_doc_template

  Public

  ncbi/ncbi_doc_template’s past year of commit activity
  CSS

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  The Unlicense

  •77 forks in ncbi/ncbi_doc_template•44 stars in ncbi/ncbi_doc_template•00 issues in ncbi/ncbi_doc_template•00 pull requests in ncbi/ncbi_doc_template•Updated Oct 6, 2026Oct 6, 2026

• egapx

  Public

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

  Nextflow

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  Other

  •2525 forks in ncbi/egapx•214214 stars in ncbi/egapx•2020 issues in ncbi/egapx•22 pull requests in ncbi/egapx•Updated Sep 28, 2026Sep 28, 2026

• ncbi-cxx-toolkit-conan

  Public

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

  Python

  •1313 forks in ncbi/ncbi-cxx-toolkit-conan•1414 stars in ncbi/ncbi-cxx-toolkit-conan•00 issues in ncbi/ncbi-cxx-toolkit-conan•00 pull requests in ncbi/ncbi-cxx-toolkit-conan•Updated Sep 21, 2026Sep 21, 2026

• sra-lite-benchmarks

  Public

  ncbi/sra-lite-benchmarks’s past year of commit activity
  Support material for the article on SRA Lite

  Shell

  •00 forks in ncbi/sra-lite-benchmarks•00 stars in ncbi/sra-lite-benchmarks•00 issues in ncbi/sra-lite-benchmarks•00 pull requests in ncbi/sra-lite-benchmarks•Updated Sep 3, 2026Sep 3, 2026

• rnaseq_gene_counts

  Public

  ncbi/rnaseq_gene_counts’s past year of commit activity
  RNAseq gene counts

  Python

  •00 forks in ncbi/rnaseq_gene_counts•00 stars in ncbi/rnaseq_gene_counts•00 issues in ncbi/rnaseq_gene_counts•00 pull requests in ncbi/rnaseq_gene_counts•Updated Sep 3, 2026Sep 3, 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

  •77 forks in ncbi/stxtyper•1919 stars in ncbi/stxtyper•11 issue in ncbi/stxtyper•00 pull requests in ncbi/stxtyper•Updated Aug 28, 2026Aug 28, 2026

• pgap

  Public

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

  Common Workflow Language

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  Other

  •101101 forks in ncbi/pgap•391391 stars in ncbi/pgap•22 issues in ncbi/pgap•00 pull requests in ncbi/pgap•Updated Aug 19, 2026Aug 19, 2026

• dbvar

  Public

  ncbi/dbvar’s past year of commit activity
  dbVar

  structuralvariationdbvar

  structuralvariationdbvar

  1313 forks in ncbi/dbvar•4141 stars in ncbi/dbvar•00 issues in ncbi/dbvar•11 pull request in ncbi/dbvar•Updated Jul 22, 2026Jul 22, 2026

• igblast

  Public
  CSS

  •99 forks in ncbi/igblast•77 stars in ncbi/igblast•00 issues in ncbi/igblast•00 pull requests in ncbi/igblast•Updated Jul 8, 2026Jul 8, 2026

• CF-random_software

  Public
  Prediction of alternative conformation and fold-switching proteins with ColabFold

  Python

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  Other

  •44 forks in ncbi/CF-random_software•1616 stars in ncbi/CF-random_software•00 issues in ncbi/CF-random_software•11 pull request in ncbi/CF-random_software•Updated Jul 7, 2026Jul 7, 2026

• clinvar

  Public
  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

  •1818 forks in ncbi/clinvar•8484 stars in ncbi/clinvar•44 issues in ncbi/clinvar•00 pull requests in ncbi/clinvar•Updated Jun 30, 2026Jun 30, 2026

• redenovo

  Public
  Python

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  MIT License

  •00 forks in ncbi/redenovo•33 stars in ncbi/redenovo•00 issues in ncbi/redenovo•00 pull requests in ncbi/redenovo•Updated Jun 18, 2026Jun 18, 2026

• FcaSexDiff

  Public
  This repository contains the source code used to analyze the differences between male and female cells in the Fly Single Cell Atlas.

  Python

  •33 forks in ncbi/FcaSexDiff•11 star in ncbi/FcaSexDiff•00 issues in ncbi/FcaSexDiff•00 pull requests in ncbi/FcaSexDiff•Updated Jun 10, 2026Jun 10, 2026

• ngs-tools

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  C++

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  Other

  •2525 forks in ncbi/ngs-tools•114114 stars in ncbi/ngs-tools•77 issues in ncbi/ngs-tools•44 pull requests in ncbi/ngs-tools•Updated Apr 23, 2026Apr 23, 2026

• ncbi-vdb-conan

  Public
  Conan package recipe for NCBI VDB Toolkit

  Python

  •11 fork in ncbi/ncbi-vdb-conan•11 star in ncbi/ncbi-vdb-conan•00 issues in ncbi/ncbi-vdb-conan•00 pull requests in ncbi/ncbi-vdb-conan•Updated Apr 22, 2026Apr 22, 2026

• blast_plus_docs

  Public
  3131 forks in ncbi/blast_plus_docs•124124 stars in ncbi/blast_plus_docs•55 issues in ncbi/blast_plus_docs•11 pull request in ncbi/blast_plus_docs•Updated Mar 24, 2026Mar 24, 2026

• GNorm2

  Public
  Java

  •1111 forks in ncbi/GNorm2•2929 stars in ncbi/GNorm2•77 issues in ncbi/GNorm2•00 pull requests in ncbi/GNorm2•Updated Feb 23, 2026Feb 23, 2026

• elastic-blast

  Public
  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

  •2525 forks in ncbi/elastic-blast•7272 stars in ncbi/elastic-blast•33 issues in ncbi/elastic-blast•11 pull request in ncbi/elastic-blast•Updated Jan 29, 2026Jan 29, 2026