NCBI - National Center for Biotechnology Information/NLM/NIH

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158 repositories

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
•4•12•1•0•Updated Jan 29, 2025Jan 29, 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
•8•21•0•1•Updated Jan 29, 2025Jan 29, 2025
BioREx
Public
Python
•8•31•2•0•Updated Jan 29, 2025Jan 29, 2025
pgap
Public
NCBI Prokaryotic Genome Annotation Pipeline
Common Workflow Language
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Other
•92•326•10•0•Updated Jan 29, 2025Jan 29, 2025
ncbi-cxx-toolkit-public
Public
NCBI C++ Toolkit package sources
C++
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Other
•27•60•1•0•Updated Jan 29, 2025Jan 29, 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
•41•287•12•0•Updated Jan 28, 2025Jan 28, 2025
vadr
Public
Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
Perl
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Other
•24•104•7•0•Updated Jan 28, 2025Jan 28, 2025
ncbi-cxx-toolkit-conan
Public
NCBI C++ Toolkit package recipe
Python
•8•8•0•0•Updated Jan 27, 2025Jan 27, 2025
sra-tools
Public
SRA Tools
C
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Other
•251•1.2k•80•7•Updated Jan 22, 2025Jan 22, 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
•43•158•6•2•Updated Jan 15, 2025Jan 15, 2025
ngs-tools
Public
C++
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Other
•25•104•9•4•Updated Jan 15, 2025Jan 15, 2025
ncbi-vdb
Public
ncbi-vdb
C
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Other
•39•89•10•4•Updated Jan 15, 2025Jan 15, 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
•17•49•3•1•Updated Jan 13, 2025Jan 13, 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
•45•382•22•0•Updated Jan 10, 2025Jan 10, 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•8•5•0•Updated Jan 7, 2025Jan 7, 2025
egapx
Public
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Nextflow
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Other
•12•108•9•0•Updated Jan 7, 2025Jan 7, 2025
ncbi-logging
Public
Log monitoring and gathering infrastructure to feed analytics
C++
•8•5•0•1•Updated Dec 31, 2024Dec 31, 2024
cxx-toolkit
Public
HTML
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The Unlicense
•47•19•0•0•Updated Dec 26, 2024Dec 26, 2024
ribovore
Public
Perl
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Other
•5•14•3•0•Updated Dec 16, 2024Dec 16, 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
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Other
•17•67•1•1•Updated Dec 4, 2024Dec 4, 2024
clinvar
Public
ClinVar aggregates information about genomic variation and its relationship to human health. Contact us at '[email protected]' with any questions or comments.
HTML
•15•74•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•117•12•0•Updated Nov 19, 2024Nov 19, 2024
nongenomic-evolution-of-tumor-subclones
Public
Python
•1•2•0•0•Updated Nov 5, 2024Nov 5, 2024
SpaceProfiler
Public
Jupyter Notebook
•0•1•0•0•Updated Oct 30, 2024Oct 30, 2024
SKESA
Public
SKESA assembler
C++
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Other
•19•114•18•2•Updated Oct 11, 2024Oct 11, 2024
workshop-asm-ngs-2024
Public
Pre-conference workshop for ASM NGS 2024
1•6•0•0•Updated Oct 10, 2024Oct 10, 2024
ncbi_doc_template
Public
CSS
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The Unlicense
•6•3•0•0•Updated Oct 9, 2024Oct 9, 2024
rapt
Public
Read Assembly and Annotation Pipeline Tool
ngs genome-annotation pgap annotation-pipeline skesa
17•56•14•0•Updated Oct 3, 2024Oct 3, 2024
gtax
Public
Python
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Other
•4•6•2•0•Updated Oct 3, 2024Oct 3, 2024