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 Feb 4, 2025Feb 4, 2025
ncbi-cxx-toolkit-public
Public
NCBI C++ Toolkit package sources
C++
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Other
•27•61•1•0•Updated Feb 4, 2025Feb 4, 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 31, 2025Jan 31, 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•288•11•0•Updated Jan 31, 2025Jan 31, 2025
ncbi-vdb-conan
Public
Conan package recipe for NCBI VDB Toolkit
Python
•1•0•0•0•Updated Jan 31, 2025Jan 31, 2025
vadr
Public
Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
Perl
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Other
•25•105•7•0•Updated Jan 31, 2025Jan 31, 2025
ncbi-cxx-toolkit-conan
Public
NCBI C++ Toolkit package recipe
Python
•8•8•0•0•Updated Jan 31, 2025Jan 31, 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•7•0•Updated Jan 29, 2025Jan 29, 2025
sra-tools
Public
SRA Tools
C
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Other
•252•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•105•9•4•Updated Jan 15, 2025Jan 15, 2025
ncbi-vdb
Public
ncbi-vdb
C
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Other
•39•90•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•50•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•383•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•10•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•109•8•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
fcs
Public
Foreign Contamination Screening caller scripts and documentation
Other
•16•119•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