NCBI - National Center for Biotechnology Information/NLM/NIH

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159 repositories

ncbi-vdb
Public
ncbi-vdb
C
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Other
•40•91•11•5•Updated Apr 24, 2025Apr 24, 2025
sra-tools
Public
SRA Tools
C
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Other
•259•1.2k•34•5•Updated Apr 24, 2025Apr 24, 2025
ncbi-cxx-toolkit-conan
Public
NCBI C++ Toolkit package recipe
Python
•8•9•0•0•Updated Apr 24, 2025Apr 24, 2025
ncbi-cxx-toolkit-public
Public
NCBI C++ Toolkit package sources
C++
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Other
•31•71•1•0•Updated Apr 24, 2025Apr 24, 2025
pgap
Public
NCBI Prokaryotic Genome Annotation Pipeline
Common Workflow Language
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Other
•95•334•1•0•Updated Apr 23, 2025Apr 23, 2025
cxx-toolkit
Public
HTML
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The Unlicense
•48•20•0•0•Updated Apr 22, 2025Apr 22, 2025
docker
Public
Dockerfile
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Other
•32•54•1•0•Updated Apr 22, 2025Apr 22, 2025
amr
Public
AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
genomics pathogen antibiotic-resistance bioinformatics
C++
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Other
•44•302•10•0•Updated Apr 21, 2025Apr 21, 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
•9•23•0•1•Updated Apr 19, 2025Apr 19, 2025
igblast
Public
CSS
•8•6•0•0•Updated Apr 18, 2025Apr 18, 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
•48•411•18•1•Updated Apr 18, 2025Apr 18, 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
•16•55•3•0•Updated Apr 17, 2025Apr 17, 2025
magicblast
Public
Python
•16•36•12•0•Updated Apr 17, 2025Apr 17, 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
•5•14•1•0•Updated Apr 16, 2025Apr 16, 2025
ngs-tools
Public
C++
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Other
•25•107•8•4•Updated Apr 8, 2025Apr 8, 2025
ncbi-logging
Public
Log monitoring and gathering infrastructure to feed analytics
C++
•8•6•0•1•Updated Apr 3, 2025Apr 3, 2025
elastic-blast-docs
Public
ElasticBLAST documentation
Other
•5•7•0•0•Updated Apr 3, 2025Apr 3, 2025
egapx
Public
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Nextflow
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Other
•13•134•9•0•Updated Apr 2, 2025Apr 2, 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
•45•164•7•2•Updated Apr 2, 2025Apr 2, 2025
rapt
Public archive
This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.
ngs genome-annotation pgap annotation-pipeline skesa
17•57•0•0•Updated Apr 1, 2025Apr 1, 2025
DbGaP-FHIR-API-Docs
Public
The documentation repository for the dbGaP FHIR API.
documentation fhir phenotypes
Jupyter Notebook
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Other
•3•11•5•0•Updated Mar 31, 2025Mar 31, 2025
vadr
Public
Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
Perl
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Other
•27•109•7•0•Updated Mar 26, 2025Mar 26, 2025
ribovore
Public
Perl
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Other
•5•16•3•0•Updated Mar 26, 2025Mar 26, 2025
ncbi-vdb-conan
Public
Conan package recipe for NCBI VDB Toolkit
Python
•1•1•0•0•Updated Mar 21, 2025Mar 21, 2025
submission-schema
Public
0•1•0•0•Updated Mar 18, 2025Mar 18, 2025
fcs-gx
Public
Foreign Contamination Screening - GX source code
C++
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Other
•4•19•7•0•Updated Mar 18, 2025Mar 18, 2025
fcs
Public
Foreign Contamination Screening caller scripts and documentation
Other
•17•129•12•1•Updated Mar 18, 2025Mar 18, 2025
AF2_benchmark
Public
Jupyter Notebook
•3•17•0•0•Updated Feb 25, 2025Feb 25, 2025
BioREx
Public
Python
•9•34•2•0•Updated Feb 7, 2025Feb 7, 2025
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
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Other
•17•68•1•1•Updated Dec 4, 2024Dec 4, 2024