NCBI - National Center for Biotechnology Information/NLM/NIH

Pinned Repositories

amr
AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
Language:C++264 26 11637
datasets
NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.
Language:Jupyter Notebook355 27 19239
GeneGPT
Code and data for GeneGPT.
Language:Python373 18 526
gprobe
client app for the gRPC health-checking protocol
Language:Go83 23 323
icn3d
web-based protein structure viewer and analysis tool interactively or in batch mode
Language:JavaScript152 19 10142
MedCPT
Code for MedCPT, a model for zero-shot biomedical information retrieval.
Language:Python129 11 614
pgap
NCBI Prokaryotic Genome Annotation Pipeline
Language:Common Workflow Language306 29 31190
PubReader
A new way to view journal articles
Language:JavaScript200 63 481
sra-tools
SRA Tools
Language:C1.1k 56 852243
TPMCalculator
TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
Language:C++124 20 5233

NCBI - National Center for Biotechnology Information/NLM/NIH's Repositories

ncbi/sra-tools
SRA Tools
Language:C1.1k 56 852243
ncbi/datasets
NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.
Language:Jupyter Notebook355 27 19239
ncbi/pgap
NCBI Prokaryotic Genome Annotation Pipeline
Language:Common Workflow Language306 29 31190
ncbi/amr
AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.
Language:C++264 26 11637
ncbi/icn3d
web-based protein structure viewer and analysis tool interactively or in batch mode
Language:JavaScript152 19 10142
ncbi/ngs-tools
Language:C++103 28 2025
ncbi/vadr
Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
Language:Perl98 19 7822
ncbi/ncbi-vdb
ncbi-vdb
Language:C89 25 5138
ncbi/clinvar
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.
Language:HTML68 17 814
ncbi/egapx
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Language:Nextflow68 20 225
ncbi/ncbi-cxx-toolkit-public
NCBI C++ Toolkit package sources
Language:C++52 14 819
ncbi/docker
Language:Dockerfile47 21 732
ncbi/elastic-blast
ElasticBLAST is a cloud-based tool to perform your BLAST searches faster and make you more effective
Language:Python45 16 1515
ncbi/AIONER
AIONER
Language:Python40 15 312
ncbi/BioREx
Language:Python25 12 109
ncbi/cxx-toolkit
Language:HTML19 13 444
ncbi/tree-tool
Incremental building of phylogenetic distance trees
Language:C++15 10 07
ncbi/ribovore
Language:Perl13 5 65
ncbi/AF2_benchmark
Language:Jupyter Notebook12 2 23
ncbi/DbGaP-FHIR-API-Docs
The documentation repository for the dbGaP FHIR API.
Language:Jupyter Notebook7 12 73
ncbi/gtax
Language:Python5 11 24
ncbi/SuPER
Language:Python5 10 04
ncbi/elastic-blast-docs
ElasticBLAST documentation
4 17 15
ncbi/ncbi-cxx-toolkit-conan
NCBI C++ Toolkit package recipe
Language:Python4 14 08
ncbi/pubchem-align3d
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.
Language:C++4 9 01
ncbi/SRPRISM
Language:C++4 8 16
ncbi/stxtyper
StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.
Language:C++4 14 01
ncbi/CF-random
Language:Python32
ncbi/nongenetic-evolution-of-tumor-subclones
Language:Python1 9 01
ncbi/workshop-asm-ngs-2024
Pre-conference workshop for ASM NGS 2024
11