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An open API service providing package, version and dependency metadata of many open source software ecosystems and registries.

bioconductor.org "DataImport" keyword

View the packages on the bioconductor.org package registry that are tagged with the "DataImport" keyword.

brendaDb 1.24.0
The BRENDA Enzyme Database
6 versions - Latest release: 2 months ago - 11.5 thousand downloads total - 2 stars on GitHub - 1 maintainer
rexposome 1.32.0
Exposome exploration and outcome data analysis
6 versions - Latest release: 2 months ago - 1 dependent package - 19.2 thousand downloads total - 1 maintainer
cmapR 1.22.0
CMap Tools in R
6 versions - Latest release: 3 months ago - 46.4 thousand downloads total - 92 stars on GitHub - 1 maintainer
universalmotif 1.28.0
Import, Modify, and Export Motifs with R
9 versions - Latest release: 2 months ago - 4 dependent packages - 77.5 thousand downloads total - 1 maintainer
CardinalIO 1.8.0
Read and write mass spectrometry imaging files
5 versions - Latest release: 3 months ago - 1 dependent package - 10.6 thousand downloads total - 1 maintainer
Top 1.5% on bioconductor.org
scater 1.38.0
Single-Cell Analysis Toolkit for Gene Expression Data in R
9 versions - Latest release: 3 months ago - 96 dependent packages - 1.05 million downloads total - 1 maintainer
Top 0.2% on bioconductor.org
Biostrings 2.78.0
Efficient manipulation of biological strings
11 versions - Latest release: 3 months ago - 333 dependent packages - 9.32 million downloads total - 1 maintainer
Top 1.7% on bioconductor.org
rhdf5 2.54.1
R Interface to HDF5
11 versions - Latest release: 2 months ago - 69 dependent packages - 3.25 million downloads total - 69 stars on GitHub - 1 maintainer
Top 1.9% on bioconductor.org
minfi 1.56.0
Analyze Illumina Infinium DNA methylation arrays
8 versions - Latest release: 3 months ago - 31 dependent packages - 938 thousand downloads total - 64 stars on GitHub - 1 maintainer
Top 1.4% on bioconductor.org
GEOquery 2.78.0
Get data from NCBI Gene Expression Omnibus (GEO)
6 versions - Latest release: 3 months ago - 47 dependent packages - 2.33 million downloads total - 103 stars on GitHub - 1 maintainer
Top 1.4% on bioconductor.org
HDF5Array 1.38.0
HDF5 datasets as array-like objects in R
8 versions - Latest release: 3 months ago - 54 dependent packages - 1.71 million downloads total - 1 maintainer
Top 1.3% on bioconductor.org
ShortRead 1.68.0
FASTQ input and manipulation
7 versions - Latest release: 3 months ago - 36 dependent packages - 1.97 million downloads total - 1 maintainer
Top 1.0% on bioconductor.org
SingleCellExperiment 1.32.0
S4 Classes for Single Cell Data
8 versions - Latest release: 3 months ago - 201 dependent packages - 2 million downloads total - 1 maintainer
Top 1.9% on bioconductor.org
MSnbase 2.36.0
Base Functions and Classes for Mass Spectrometry and Proteomics
8 versions - Latest release: 3 months ago - 30 dependent packages - 587 thousand downloads total - 123 stars on GitHub - 1 maintainer
Top 0.9% on bioconductor.org
VariantAnnotation 1.56.0
Annotation of Genetic Variants
8 versions - Latest release: 3 months ago - 93 dependent packages - 2.06 million downloads total - 1 maintainer
Top 0.6% on bioconductor.org
GenomicAlignments 1.46.0
Representation and manipulation of short genomic alignments
8 versions - Latest release: 3 months ago - 132 dependent packages - 4.89 million downloads total - 1 maintainer
Top 0.4% on bioconductor.org
rtracklayer 1.70.1
R interface to genome annotation files and the UCSC genome browser
7 versions - Latest release: about 2 months ago - 251 dependent packages - 5.11 million downloads total - 1 maintainer
Top 1.7% on bioconductor.org
ggtree 4.0.4
an R package for visualization of tree and annotation data
12 versions - Latest release: about 1 month ago - 28 dependent packages - 2.22 million downloads total - 1 maintainer
Top 0.3% on bioconductor.org
limma 3.66.0
Linear Models for Microarray and Omics Data
16 versions - Latest release: 3 months ago - 322 dependent packages - 6.92 million downloads total - 1 maintainer
sevenC 1.30.0
Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
6 versions - Latest release: 3 months ago - 14.4 thousand downloads total - 13 stars on GitHub - 1 maintainer
BaseSpaceR 1.54.0
R SDK for BaseSpace RESTful API
6 versions - Latest release: 2 months ago - 32.6 thousand downloads total - 1 maintainer
Top 6.1% on bioconductor.org
SpatialExperiment 1.20.0
S4 Class for Spatially Resolved -omics Data
7 versions - Latest release: 2 months ago - 36 dependent packages - 310 thousand downloads total - 54 stars on GitHub - 1 maintainer
visiumStitched 1.2.0
Enable downstream analysis of Visium capture areas stitched together with Fiji
2 versions - Latest release: 3 months ago - 2.88 thousand downloads total - 4 stars on GitHub - 1 maintainer
bandle 1.14.0
An R package for the Bayesian analysis of differential subcellular localisation experiments
6 versions - Latest release: 3 months ago - 8.17 thousand downloads total - 4 stars on GitHub - 1 maintainer
SPIAT 1.12.0
Spatial Image Analysis of Tissues
10 versions - Latest release: 3 months ago - 10.8 thousand downloads total - 24 stars on GitHub - 1 maintainer
SICtools 1.40.0
Find SNV/Indel differences between two bam files with near relationship
6 versions - Latest release: 2 months ago - 17.6 thousand downloads total - 1 maintainer
BiocFHIR 1.12.0
Illustration of FHIR ingestion and transformation using R
6 versions - Latest release: 3 months ago - 6.74 thousand downloads total - 4 stars on GitHub - 1 maintainer
Top 2.9% on bioconductor.org
openCyto 2.22.0
Hierarchical Gating Pipeline for flow cytometry data
8 versions - Latest release: 2 months ago - 8 dependent packages - 210 thousand downloads total - 1 maintainer
iSEEhub 1.12.0
iSEE for the Bioconductor ExperimentHub
6 versions - Latest release: 2 months ago - 8.85 thousand downloads total - 3 stars on GitHub - 1 maintainer
traseR 1.40.0
GWAS trait-associated SNP enrichment analyses in genomic intervals
6 versions - Latest release: 2 months ago - 18.9 thousand downloads total
AMARETTO 1.26.0
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis an...
6 versions - Latest release: 3 months ago - 16.9 thousand downloads total - 1 maintainer
Rarr 1.10.1
Read Zarr Files in R
7 versions - Latest release: 2 months ago - 12.4 thousand downloads total - 45 stars on GitHub - 1 maintainer
alabaster.mae 1.10.0
Load and Save MultiAssayExperiments
6 versions - Latest release: 2 months ago - 1 dependent package - 8.25 thousand downloads total - 1 maintainer
biodb 1.18.0
Biodb, a Library and a Development Framework for Connecting to Chemical and Biological Databases
7 versions - Latest release: 2 months ago - 10 dependent packages - 17.6 thousand downloads total - 11 stars on GitHub - 1 maintainer
h5mread 1.2.1
A fast HDF5 reader
3 versions - Latest release: 2 months ago - 172 thousand downloads total - 1 maintainer
podkat 1.42.0
Position-Dependent Kernel Association Test
6 versions - Latest release: 2 months ago - 21.9 thousand downloads total - 0 stars on GitHub - 1 maintainer
UCSC.utils 1.6.1
Low-level utilities to retrieve data from the UCSC Genome Browser
5 versions - Latest release: about 1 month ago - 2 dependent packages - 1.39 million downloads total - 1 maintainer
imcRtools 1.16.0
Methods for imaging mass cytometry data analysis
6 versions - Latest release: 3 months ago - 1 dependent package - 20.1 thousand downloads total - 27 stars on GitHub - 1 maintainer
Top 9.9% on bioconductor.org
affyio 1.80.0
Tools for parsing Affymetrix data files
6 versions - Latest release: 3 months ago - 12 dependent packages - 1.91 million downloads total - 3 stars on GitHub - 1 maintainer
Top 7.6% on bioconductor.org
biomformat 1.38.0
An interface package for the BIOM file format
6 versions - Latest release: 3 months ago - 8 dependent packages - 843 thousand downloads total - 7 stars on GitHub - 1 maintainer
beachmat.tiledb 1.2.0
beachmat bindings for TileDB-backed matrices
2 versions - Latest release: 3 months ago - 2.53 thousand downloads total - 0 stars on GitHub - 1 maintainer
gDRimport 1.8.1
Package for handling the import of dose-response data
7 versions - Latest release: about 1 month ago - 2 dependent packages - 6.7 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 7.3% on bioconductor.org
TCGAutils 1.30.2
TCGA utility functions for data management
8 versions - Latest release: about 1 month ago - 7 dependent packages - 182 thousand downloads total - 19 stars on GitHub - 1 maintainer
SurfR 1.6.0
Surface Protein Prediction and Identification
10 versions - Latest release: 3 months ago - 5.26 thousand downloads total - 0 stars on GitHub - 1 maintainer
ncRNAtools 1.20.0
An R toolkit for non-coding RNA
6 versions - Latest release: 2 months ago - 9.23 thousand downloads total - 1 stars on GitHub - 1 maintainer
scPipe 2.10.0
Pipeline for single cell multi-omic data pre-processing
6 versions - Latest release: 3 months ago - 24.9 thousand downloads total - 69 stars on GitHub - 1 maintainer
SpatialOmicsOverlay 1.10.0
Spatial Overlay for Omic Data from Nanostring GeoMx Data
7 versions - Latest release: 3 months ago - 6.77 thousand downloads total - 1 maintainer
periodicDNA 1.20.0
Set of tools to identify periodic occurrences of k-mers in DNA sequences
6 versions - Latest release: 3 months ago - 9.8 thousand downloads total - 6 stars on GitHub - 1 maintainer
ggkegg 1.8.0
Analyzing and visualizing KEGG information using the grammar of graphics
16 versions - Latest release: 3 months ago - 19.7 thousand downloads total - 235 stars on GitHub - 1 maintainer
Top 9.1% on bioconductor.org
codelink 1.78.0
Manipulation of Codelink microarray data
6 versions - Latest release: 3 months ago - 1 dependent package - 43.8 thousand downloads total - 0 stars on GitHub - 2 maintainers
DAPAR 1.42.0
Tools for the Differential Analysis of Proteins Abundance with R
11 versions - Latest release: 2 months ago - 1 dependent package - 29.9 thousand downloads total - 1 maintainer
CopyNumberPlots 1.26.0
Create Copy-Number Plots using karyoploteR functionality
7 versions - Latest release: 3 months ago - 2 dependent packages - 16.1 thousand downloads total - 6 stars on GitHub - 1 maintainer
GCPtools 1.0.0
Tools for working with gcloud and gsutil
1 version - Latest release: 3 months ago - 2.03 thousand downloads total - 1 maintainer
ndexr 1.32.0
NDEx R client library
6 versions - Latest release: 3 months ago - 16.2 thousand downloads total - 9 stars on GitHub - 1 maintainer
alabaster.sce 1.10.0
Load and Save SingleCellExperiment from File
6 versions - Latest release: 2 months ago - 2 dependent packages - 40.4 thousand downloads total - 1 maintainer
Top 2.8% on bioconductor.org
DECIPHER 3.6.0
Tools for curating, analyzing, and manipulating biological sequences
6 versions - Latest release: 2 months ago - 7 dependent packages - 352 thousand downloads total - 1 maintainer
Doscheda 1.32.0
A DownStream Chemo-Proteomics Analysis Pipeline
6 versions - Latest release: 2 months ago - 15.4 thousand downloads total - 1 maintainer
Top 5.9% on bioconductor.org
muscle 3.52.0
Multiple Sequence Alignment with MUSCLE
6 versions - Latest release: 3 months ago - 60.6 thousand downloads total - 1 maintainer
Basic4Cseq 1.46.0
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
6 versions - Latest release: 2 months ago - 29.9 thousand downloads total - 1 maintainer
IONiseR 2.34.0
Quality Assessment Tools for Oxford Nanopore MinION data
6 versions - Latest release: 2 months ago - 26.7 thousand downloads total - 1 maintainer
HelloRanges 1.36.0
Introduce *Ranges to bedtools users
6 versions - Latest release: 2 months ago - 2 dependent packages - 31.4 thousand downloads total - 1 maintainer
cummeRbund 2.51.0
Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data.
6 versions - Latest release: 2 months ago - 594 thousand downloads total - 1 maintainer
Top 9.3% on bioconductor.org
HELP 1.68.0
Tools for HELP data analysis
6 versions - Latest release: 2 months ago - 37.1 thousand downloads total - 1 maintainer
HuBMAPR 1.4.0
Interface to 'HuBMAP'
7 versions - Latest release: 3 months ago - 3.75 thousand downloads total - 3 stars on GitHub - 1 maintainer
SingleCellAlleleExperiment 1.6.0
S4 Class for Single Cell Data with Allele and Functional Levels for Immune Genes
6 versions - Latest release: 2 months ago - 5.06 thousand downloads total - 7 stars on GitHub - 1 maintainer
SCArray 1.18.0
Large-scale single-cell omics data manipulation with GDS files
6 versions - Latest release: 3 months ago - 1 dependent package - 9.67 thousand downloads total - 1 stars on GitHub - 1 maintainer
chevreulShiny 1.2.0
Tools for managing SingleCellExperiment objects as projects
3 versions - Latest release: about 1 month ago - 2.33 thousand downloads total - 0 stars on GitHub - 1 maintainer
scDataviz 1.20.0
scDataviz: single cell dataviz and downstream analyses
6 versions - Latest release: 3 months ago - 11.1 thousand downloads total - 63 stars on GitHub - 1 maintainer
terraTCGAdata 1.14.0
OpenAccess TCGA Data on Terra as MultiAssayExperiment
6 versions - Latest release: 3 months ago - 7.26 thousand downloads total - 0 stars on GitHub - 1 maintainer
MACSQuantifyR 1.24.0
Fast treatment of MACSQuantify FACS data
6 versions - Latest release: 2 months ago - 9.23 thousand downloads total - 1 maintainer
SRAdb 1.72.0
A compilation of metadata from NCBI SRA and tools
7 versions - Latest release: 2 months ago - 132 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 6.4% on bioconductor.org
hpar 1.52.0
Human Protein Atlas in R
6 versions - Latest release: 2 months ago - 3 dependent packages - 69 thousand downloads total - 1 maintainer
HiCBricks 1.28.0
Framework for Storing and Accessing Hi-C Data Through HDF Files
6 versions - Latest release: 2 months ago - 1 dependent package - 16 thousand downloads total - 1 maintainer
Top 5.6% on bioconductor.org
HTqPCR 1.64.0
Automated analysis of high-throughput qPCR data
6 versions - Latest release: 2 months ago - 2 dependent packages - 60.7 thousand downloads total - 1 maintainer
Top 6.7% on bioconductor.org
segmentSeq 2.44.0
Methods for identifying small RNA loci from high-throughput sequencing data
6 versions - Latest release: 3 months ago - 44.6 thousand downloads total - 0 stars on GitHub - 1 maintainer
cogena 1.44.0
co-expressed gene-set enrichment analysis
6 versions - Latest release: 3 months ago - 26.4 thousand downloads total - 12 stars on GitHub - 1 maintainer
Top 4.5% on bioconductor.org
ArrayExpress 1.70.0
Access the ArrayExpress Collection at EMBL-EBI Biostudies and build Bioconductor data structures:...
7 versions - Latest release: 2 months ago - 1 dependent package - 152 thousand downloads total - 1 maintainer
ChIPComp 1.40.0
Quantitative comparison of multiple ChIP-seq datasets
6 versions - Latest release: 2 months ago - 23.3 thousand downloads total - 1 maintainer
OmnipathR 3.18.4
OmniPath web service client and more
11 versions - Latest release: 7 days ago - 3 dependent packages - 63.1 thousand downloads total - 1 maintainer
Top 6.3% on bioconductor.org
ChemmineR 3.62.0
Cheminformatics Toolkit for R
6 versions - Latest release: 2 months ago - 8 dependent packages - 528 thousand downloads total - 16 stars on GitHub - 1 maintainer
ASICS 2.26.0
Automatic Statistical Identification in Complex Spectra
8 versions - Latest release: 2 months ago - 23.6 thousand downloads total - 1 maintainer
Top 4.7% on bioconductor.org
RnBeads 2.28.0
RnBeads
6 versions - Latest release: 2 months ago - 1 dependent package - 79.7 thousand downloads total - 1 maintainer
MsBackendMsp 1.14.0
Mass Spectrometry Data Backend for NIST msp Files
6 versions - Latest release: 3 months ago - 17.8 thousand downloads total - 5 stars on GitHub - 1 maintainer
NanoMethViz 3.6.0
Visualise methylation data from Oxford Nanopore sequencing
6 versions - Latest release: 3 months ago - 13.1 thousand downloads total - 32 stars on GitHub - 1 maintainer
Top 4.0% on bioconductor.org
CytoML 2.22.0
A GatingML Interface for Cross Platform Cytometry Data Sharing
8 versions - Latest release: 3 months ago - 3 dependent packages - 145 thousand downloads total - 31 stars on GitHub - 1 maintainer
TRONCO 2.42.0
TRONCO, an R package for TRanslational ONCOlogy
7 versions - Latest release: 2 months ago - 25.6 thousand downloads total - 1 maintainer
VisiumIO 1.6.3
Import Visium data from the 10X Space Ranger pipeline
6 versions - Latest release: 2 months ago - 6.94 thousand downloads total - 0 stars on GitHub - 1 maintainer
gDR 1.8.0
Umbrella package for R packages in the gDR suite
6 versions - Latest release: 3 months ago - 5.4 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 8.2% on bioconductor.org
zellkonverter 1.20.1
Conversion Between scRNA-seq Objects
9 versions - Latest release: 7 days ago - 6 dependent packages - 133 thousand downloads total - 148 stars on GitHub - 1 maintainer
Top 5.4% on bioconductor.org
limmaGUI 1.86.0
GUI for limma Package With Two Color Microarrays
6 versions - Latest release: 2 months ago - 57.4 thousand downloads total - 1 maintainer
Top 2.3% on bioconductor.org
flowWorkspace 4.22.1
Infrastructure for representing and interacting with gated and ungated cytometry data sets.
11 versions - Latest release: 7 days ago - 13 dependent packages - 356 thousand downloads total - 2 maintainers
SynExtend 1.22.0
Tools for Comparative Genomics
7 versions - Latest release: 3 months ago - 11.4 thousand downloads total - 1 stars on GitHub - 1 maintainer
anndataR 1.0.1
AnnData interoperability in R
2 versions - Latest release: 7 days ago - 2.93 thousand downloads total - 1 maintainer
TPP2D 1.26.0
Detection of ligand-protein interactions from 2D thermal profiles (DLPTP)
7 versions - Latest release: 3 months ago - 11 thousand downloads total - 1 maintainer
svaNUMT 1.16.0
NUMT detection from structural variant calls
6 versions - Latest release: 2 months ago - 7.49 thousand downloads total - 3 stars on GitHub - 1 maintainer
msgbsR 1.34.0
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions
6 versions - Latest release: 3 months ago - 15.5 thousand downloads total - 1 maintainer
SpotClean 1.12.0
SpotClean adjusts for spot swapping in spatial transcriptomics data
8 versions - Latest release: 2 months ago - 9.41 thousand downloads total - 33 stars on GitHub - 1 maintainer
SCArray.sat 1.9.0
Large-scale single-cell RNA-seq data analysis using GDS files and Seurat
7 versions - Latest release: 2 months ago - 5.82 thousand downloads total - 1 stars on GitHub - 1 maintainer
RcwlPipelines 1.26.0
Bioinformatics pipelines based on Rcwl
7 versions - Latest release: 2 months ago - 1 dependent package - 13.6 thousand downloads total - 1 maintainer
cbpManager 1.18.0
Generate, manage, and edit data and metadata files suitable for the import in cBioPortal for Canc...
6 versions - Latest release: 3 months ago - 9.91 thousand downloads total - 9 stars on GitHub - 1 maintainer
Related Keywords
Software 368 Sequencing 119 Infrastructure 95 GeneExpression 78 DataRepresentation 76 ImmunoOncology 75 QualityControl 72 Preprocessing 71 Visualization 71 SingleCell 62 RNASeq 60 Coverage 46 Transcriptomics 44 Alignment 42 Clustering 40 Normalization 39 DifferentialExpression 39 Proteomics 37 Genetics 36 Microarray 36 bioconductor 33 Transcription 29 MassSpectrometry 29 MultipleComparison 28 Annotation 28 r 27 Metabolomics 26 BiomedicalInformatics 23 ThirdPartyClient 22 TwoChannel 21 SequenceMatching 21 BatchEffect 20 FunctionalGenomics 19 OneChannel 19 Spatial 18 ChIPSeq 18 bioinformatics 18 Epigenetics 17 DNAMethylation 17 Bayesian 16 Regression 16 GeneSetEnrichment 15 GUI 14 GenomeAnnotation 14 SNP 14 Classification 14 bioconductor-package 13 Pathways 13 FlowCytometry 12 SystemsBiology 12 Network 12 TimeCourse 11 GeneRegulation 11 ProprietaryPlatforms 11 Microbiome 11 CellBasedAssays 11 CellBiology 11 WorkflowStep 10 CopyNumberVariation 10 DifferentialMethylation 10 Cheminformatics 10 AlternativeSplicing 9 VariantAnnotation 9 mRNAMicroarray 9 rstats 9 MethylationArray 9 ExperimentalDesign 9 GO 9 HiC 8 GraphAndNetwork 8 MicrotitrePlateAssay 8 StatisticalMethod 8 MethylSeq 8 DimensionReduction 8 WholeGenome 7 DNASeq 7 KEGG 7 DifferentialSplicing 7 ReportWriting 7 MultipleSequenceAlignment 7 genomics 7 ChipOnChip 6 r-package 6 u24ca289073 6 PeakDetection 5 PrincipalComponent 5 CpGIsland 5 ShinyApps 5 GeneticVariability 5 Pharmacogenomics 5 mass-spectrometry 5 rna-seq 5 ATACSeq 5 ExonArray 5 BiologicalQuestion 4 sequences 4 FunctionalPrediction 4 MotifAnnotation 4 Metagenomics 4 GenePrediction 4