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    154 repositories

    • icn3d

      Public
      web-based protein structure viewer and analysis tool interactively or in batch mode
      nodejsdelphiwebglvrarjupyter-notebookchemicalproteinsnpnucleotide
      JavaScript
      •
      Other
      •42•146•6•1•Updated Jun 25, 2024Jun 25, 2024

    • datasets

      Public
      NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.
      ncbigenomics-data
      Jupyter Notebook
      •
      Other
      •39•327•21•0•Updated Jun 25, 2024Jun 25, 2024

    • ncbi-cxx-toolkit-public

      Public
      NCBI C++ Toolkit package sources
      C++
      •
      Other
      •18•45•1•0•Updated Jun 25, 2024Jun 25, 2024

    • pgap

      Public
      NCBI Prokaryotic Genome Annotation Pipeline
      Common Workflow Language
      •
      Other
      •88•292•6•1•Updated Jun 25, 2024Jun 25, 2024

    • vadr

      Public
      Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
      Perl
      •
      Other
      •22•91•11•0•Updated Jun 24, 2024Jun 24, 2024

    • ncbi-vdb

      Public
      ncbi-vdb
      C
      •
      Other
      •38•89•10•1•Updated Jun 24, 2024Jun 24, 2024

    • stxtyper

      Public
      StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
      bioinformaticsgenomicspathogenescherichia-colibioinformatics-toolvirulence-genes
      C++
      •
      Other
      •1•2•0•0•Updated Jun 24, 2024Jun 24, 2024

    • tree-tool

      Public
      Incremental building of phylogenetic distance tree
      bioinformaticsevolutionphylogenetic-treesdata-analysisdistance-measuresbioinformatics-tool
      C++
      •
      Other
      •7•13•0•1•Updated Jun 23, 2024Jun 23, 2024

    • TPMCalculator

      Public
      TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
      rna-seqngstpm
      C++
      •
      Other
      •34•123•16•0•Updated Jun 21, 2024Jun 21, 2024

    • dbsnp

      Public
      dbSNP
      bioinformaticsdatabasegenomicsvariationsncbi
      Jupyter Notebook
      •46•118•9•2•Updated Jun 21, 2024Jun 21, 2024

    • fcs-gx

      Public
      Foreign Contamination Screening - GX source code
      C++
      •
      Other
      •4•9•1•0•Updated Jun 21, 2024Jun 21, 2024

    • ncbi-logging

      Public
      Log monitoring and gathering infrastructure to feed analytics
      C++
      •8•6•0•1•Updated Jun 21, 2024Jun 21, 2024

    • cxx-toolkit

      Public
      HTML
      •
      The Unlicense
      •52•18•0•0•Updated Jun 20, 2024Jun 20, 2024

    • sra-tools

      Public
      SRA Tools
      C
      •
      Other
      •244•1.1k•70•4•Updated Jun 20, 2024Jun 20, 2024

    • ngs-tools

      Public
      C++
      •
      Other
      •28•102•10•4•Updated Jun 18, 2024Jun 18, 2024

    • fcs

      Public
      Foreign Contamination Screening caller scripts and documentation
      Other
      •12•87•14•0•Updated Jun 18, 2024Jun 18, 2024

    • ncbi-vdb-conan

      Public
      Conan package recipe for NCBI VDB Toolkit
      Python
      •1•0•0•0•Updated Jun 11, 2024Jun 11, 2024

    • amr

      Public
      AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
      genomicspathogenantibiotic-resistancebioinformatics
      C++
      •
      Other
      •34•252•10•0•Updated Jun 6, 2024Jun 6, 2024

    • ncbi-cxx-toolkit-conan

      Public
      NCBI C++ Toolkit package recipe
      Python
      •8•4•0•0•Updated Jun 5, 2024Jun 5, 2024

    • BioREx

      Public
      Python
      •9•22•4•0•Updated May 22, 2024May 22, 2024

    • docker

      Public
      Dockerfile
      •
      Other
      •32•46•2•0•Updated May 21, 2024May 21, 2024

    • 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 comments.
      HTML
      •12•60•4•0•Updated May 16, 2024May 16, 2024

    • rapt

      Public
      Read Assembly and Annotation Pipeline Tool
      ngsgenome-annotationpgapannotation-pipelineskesa
      17•53•13•0•Updated May 16, 2024May 16, 2024

    • egapx

      Public
      Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
      Nextflow
      •
      Other
      •1•19•3•0•Updated May 9, 2024May 9, 2024

    • DbGaP-FHIR-API-Docs

      Public
      The documentation repository for the dbGaP FHIR API.
      documentationfhirphenotypes
      Jupyter Notebook
      •
      Other
      •3•4•5•0•Updated May 8, 2024May 8, 2024

    • nongenetic-evolution-of-tumor-subclones

      Public
      Python
      •1•0•0•0•Updated Apr 22, 2024Apr 22, 2024

    • osiris

      Public
      OSIRIS is a public domain quality assurance software package that facilitates the assessment of multiplex short tandem repeat (STR) DNA profiles based on laboratory-specific protocols. OSIRIS evaluates the raw electrophoresis data contained in .fsa or .hid files using an independently derived mathematically-based sizing algorithm. OSIRIS current…
      C++
      •21•26•0•0•Updated Apr 10, 2024Apr 10, 2024

    • histonedb

      Public
      JavaScript
      •10•2•0•4•Updated Apr 5, 2024Apr 5, 2024

    • MedCPT

      Public
      Code for MedCPT, a model for zero-shot biomedical information retrieval.
      Python
      •
      Other
      •11•111•0•0•Updated Mar 24, 2024Mar 24, 2024

    • ACTIVTRACEvariants

      Public
      Jupyter Notebook
      •
      Other
      •4•1•1•0•Updated Feb 27, 2024Feb 27, 2024
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