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    159 repositories

    • sra-tools

      Public
      SRA Tools
      C
      •
      Other
      •249•1.1k•76•6•Updated Dec 10, 2024Dec 10, 2024

    • ncbi-vdb

      Public
      ncbi-vdb
      C
      •
      Other
      •39•89•10•5•Updated Dec 10, 2024Dec 10, 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
      •2•9•0•0•Updated Dec 10, 2024Dec 10, 2024

    • ncbi-cxx-toolkit-conan

      Public
      NCBI C++ Toolkit package recipe
      Python
      •8•7•0•0•Updated Dec 10, 2024Dec 10, 2024

    • ncbi-cxx-toolkit-public

      Public
      NCBI C++ Toolkit package sources
      C++
      •
      Other
      •21•56•2•0•Updated Dec 10, 2024Dec 10, 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
      •40•278•11•0•Updated Dec 9, 2024Dec 9, 2024

    • datasets

      Public
      NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.
      ncbigenomics-data
      Jupyter Notebook
      •
      Other
      •44•377•27•0•Updated Dec 6, 2024Dec 6, 2024

    • ngs-tools

      Public
      C++
      •
      Other
      •25•103•9•4•Updated Dec 5, 2024Dec 5, 2024

    • pgap

      Public
      NCBI Prokaryotic Genome Annotation Pipeline
      Common Workflow Language
      •
      Other
      •89•319•5•0•Updated Dec 5, 2024Dec 5, 2024

    • BAMscale

      Public
      BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy visualization of commonly used DNA-seq capture based methods.
      C
      •
      Other
      •17•67•2•1•Updated Dec 4, 2024Dec 4, 2024

    • vadr

      Public
      Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
      Perl
      •
      Other
      •24•101•8•0•Updated Dec 3, 2024Dec 3, 2024

    • icn3d

      Public
      web-based protein structure viewer and analysis tool interactively or in batch mode
      nodejsdelphiwebglvrarjupyter-notebookchemicalproteinsnpnucleotide
      JavaScript
      •
      Other
      •43•154•6•2•Updated Dec 3, 2024Dec 3, 2024

    • tree-tool

      Public
      Incremental building of phylogenetic distance trees
      bioinformaticsevolutionphylogenetic-treesdata-analysisdistance-measuresbioinformatics-tool
      HTML
      •
      Other
      •7•19•0•1•Updated Dec 2, 2024Dec 2, 2024

    • cxx-toolkit

      Public
      HTML
      •
      The Unlicense
      •46•19•0•0•Updated Nov 29, 2024Nov 29, 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
      •15•70•4•0•Updated Nov 25, 2024Nov 25, 2024

    • ncbi-vdb-conan

      Public
      Conan package recipe for NCBI VDB Toolkit
      Python
      •1•0•0•0•Updated Nov 22, 2024Nov 22, 2024

    • fcs

      Public
      Foreign Contamination Screening caller scripts and documentation
      Other
      •15•110•10•0•Updated Nov 19, 2024Nov 19, 2024

    • ncbi-logging

      Public
      Log monitoring and gathering infrastructure to feed analytics
      C++
      •8•5•0•1•Updated Nov 19, 2024Nov 19, 2024

    • egapx

      Public
      Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
      Nextflow
      •
      Other
      •11•97•6•1•Updated Nov 18, 2024Nov 18, 2024

    • nongenomic-evolution-of-tumor-subclones

      Public
      Python
      •1•2•0•0•Updated Nov 5, 2024Nov 5, 2024

    • SpaceProfiler

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Oct 30, 2024Oct 30, 2024

    • ribovore

      Public
      Perl
      •
      Other
      •5•13•3•0•Updated Oct 24, 2024Oct 24, 2024

    • SKESA

      Public
      SKESA assembler
      C++
      •
      Other
      •19•112•17•2•Updated Oct 11, 2024Oct 11, 2024

    • workshop-asm-ngs-2024

      Public
      Pre-conference workshop for ASM NGS 2024
      1•5•0•0•Updated Oct 10, 2024Oct 10, 2024

    • ncbi_doc_template

      Public
      CSS
      •
      The Unlicense
      •6•3•0•0•Updated Oct 9, 2024Oct 9, 2024

    • rapt

      Public
      Read Assembly and Annotation Pipeline Tool
      ngsgenome-annotationpgapannotation-pipelineskesa
      17•55•14•0•Updated Oct 3, 2024Oct 3, 2024

    • gtax

      Public
      Python
      •
      Other
      •4•5•2•0•Updated Oct 3, 2024Oct 3, 2024

    • AF2_benchmark

      Public
      Jupyter Notebook
      •3•13•0•0•Updated Sep 20, 2024Sep 20, 2024

    • CF-random

      Public
      Python
      •2•3•0•0•Updated Sep 17, 2024Sep 17, 2024

    • 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++
      •
      Other
      •2•9•0•0•Updated Sep 16, 2024Sep 16, 2024