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

bioconductor.org "DataImport" keyword

Top 1.4% on bioconductor.org
HDF5Array 1.38.0
HDF5 datasets as array-like objects in R
8 versions - Latest release: 4 months ago - 54 dependent packages - 1.74 million downloads total - 1 maintainer
Top 1.4% on bioconductor.org
GEOquery 2.78.0
Get data from NCBI Gene Expression Omnibus (GEO)
6 versions - Latest release: 4 months ago - 47 dependent packages - 2.35 million downloads total - 105 stars on GitHub - 1 maintainer
Top 1.0% on bioconductor.org
SingleCellExperiment 1.32.0
S4 Classes for Single Cell Data
8 versions - Latest release: 4 months ago - 201 dependent packages - 2.03 million downloads total - 1 maintainer
notame 1.0.1
Workflow for non-targeted LC-MS metabolic profiling
2 versions - Latest release: about 2 months ago - 1.54 thousand downloads total - 3 stars on GitHub - 1 maintainer
DspikeIn 1.0.0
Estimating Absolute Abundance from Microbial Spike-in Controls
2 versions - Latest release: 3 months ago - 933 downloads total - 16 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: 4 months ago - 31 dependent packages - 942 thousand downloads total - 63 stars on GitHub - 1 maintainer
schex 1.24.0
Hexbin plots for single cell omics data
7 versions - Latest release: 4 months ago - 3 dependent packages - 23.1 thousand downloads total - 74 stars on GitHub - 1 maintainer
Top 0.2% on bioconductor.org
Biostrings 2.78.0
Efficient manipulation of biological strings
11 versions - Latest release: 4 months ago - 333 dependent packages - 9.4 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: 4 months ago - 30 dependent packages - 592 thousand downloads total - 123 stars on GitHub - 1 maintainer
Top 1.7% on bioconductor.org
rhdf5 2.54.1
R Interface to HDF5
11 versions - Latest release: 3 months ago - 69 dependent packages - 3.28 million downloads total - 72 stars on GitHub - 1 maintainer
Top 0.6% on bioconductor.org
GenomicAlignments 1.46.0
Representation and manipulation of short genomic alignments
8 versions - Latest release: 4 months ago - 132 dependent packages - 4.93 million 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: 4 months ago - 96 dependent packages - 1.06 million downloads total - 1 maintainer
Top 0.9% on bioconductor.org
VariantAnnotation 1.56.0
Annotation of Genetic Variants
8 versions - Latest release: 4 months ago - 93 dependent packages - 2.08 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 2 months ago - 28 dependent packages - 2.27 million downloads total - 1 maintainer
Top 1.3% on bioconductor.org
ShortRead 1.68.0
FASTQ input and manipulation
7 versions - Latest release: 4 months ago - 36 dependent packages - 1.98 million downloads total - 1 maintainer
cytoviewer 1.10.0
An interactive multi-channel image viewer for R
6 versions - Latest release: 4 months ago - 8.49 thousand downloads total - 7 stars on GitHub - 1 maintainer
HelloRanges 1.36.0
Introduce *Ranges to bedtools users
6 versions - Latest release: 3 months ago - 2 dependent packages - 32.1 thousand downloads total - 1 maintainer
profileplyr 1.26.1
Visualization and annotation of read signal over genomic ranges with profileplyr
8 versions - Latest release: about 1 month ago - 1 dependent package - 25.9 thousand downloads total - 2 maintainers
BaseSpaceR 1.54.0
R SDK for BaseSpace RESTful API
6 versions - Latest release: 3 months ago - 33.1 thousand downloads total - 1 maintainer
chevreulProcess 1.2.0
Tools for managing SingleCellExperiment objects as projects
2 versions - Latest release: 3 months ago - 2.89 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 0.3% on bioconductor.org
limma 3.66.0
Linear Models for Microarray and Omics Data
16 versions - Latest release: 4 months ago - 322 dependent packages - 6.97 million downloads total - 1 maintainer
Scale4C 1.32.0
Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data
6 versions - Latest release: 3 months ago - 15 thousand downloads total - 1 maintainer
Top 7.3% on bioconductor.org
TCGAutils 1.30.2
TCGA utility functions for data management
8 versions - Latest release: 2 months ago - 7 dependent packages - 184 thousand downloads total - 19 stars on GitHub - 1 maintainer
Top 9.4% on bioconductor.org
R453Plus1Toolbox 1.60.0
A package for importing and analyzing data from Roche's Genome Sequencer System
7 versions - Latest release: about 1 month ago - 34.9 thousand downloads total - 1 maintainer
matter 2.12.0
Out-of-core statistical computing and signal processing
10 versions - Latest release: 4 months ago - 2 dependent packages - 37.7 thousand downloads total - 52 stars on GitHub - 1 maintainer
gDRimport 1.8.1
Package for handling the import of dose-response data
7 versions - Latest release: 2 months ago - 2 dependent packages - 7.13 thousand downloads total - 3 stars on GitHub - 1 maintainer
visiumStitched 1.2.0
Enable downstream analysis of Visium capture areas stitched together with Fiji
2 versions - Latest release: 4 months ago - 3.12 thousand downloads total - 4 stars on GitHub - 1 maintainer
Top 3.1% on bioconductor.org
Rhtslib 3.6.0
HTSlib high-throughput sequencing library as an R package
7 versions - Latest release: 3 months ago - 5 dependent packages - 3.88 million downloads total - 1 maintainer
IWTomics 1.34.1
Interval-Wise Testing for Omics Data
7 versions - Latest release: about 1 month ago - 18 thousand downloads total - 1 maintainer
h5mread 1.2.1
A fast HDF5 reader
3 versions - Latest release: 3 months ago - 191 thousand downloads total - 1 maintainer
UCSC.utils 1.6.1
Low-level utilities to retrieve data from the UCSC Genome Browser
5 versions - Latest release: 2 months ago - 2 dependent packages - 1.43 million downloads total - 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: 3 months ago - 1 dependent package - 153 thousand downloads total - 1 maintainer
alabaster.files 1.8.0
Wrappers to Save Common File Formats
5 versions - Latest release: 3 months ago - 5.88 thousand downloads total - 1 maintainer
Top 2.9% on bioconductor.org
karyoploteR 1.36.0
Plot customizable linear genomes displaying arbitrary data
7 versions - Latest release: 4 months ago - 8 dependent packages - 141 thousand downloads total - 344 stars on GitHub - 1 maintainer
ncRNAtools 1.20.0
An R toolkit for non-coding RNA
6 versions - Latest release: 3 months ago - 9.63 thousand downloads total - 1 stars on GitHub - 1 maintainer
ExperimentSubset 1.20.0
Manages subsets of data with Bioconductor Experiment objects
7 versions - Latest release: 3 months ago - 10.4 thousand downloads total - 1 maintainer
RiboDiPA 1.18.0
Differential pattern analysis for Ribo-seq data
6 versions - Latest release: 3 months ago - 9.71 thousand downloads total - 1 maintainer
QTLExperiment 2.2.0
S4 classes for QTL summary statistics and metadata
5 versions - Latest release: 4 months ago - 1 dependent package - 6.1 thousand downloads total - 2 stars on GitHub - 1 maintainer
NanoStringNCTools 1.18.0
NanoString nCounter Tools
9 versions - Latest release: 3 months ago - 2 dependent packages - 32.6 thousand downloads total - 1 maintainer
ASICS 2.26.0
Automatic Statistical Identification in Complex Spectra
8 versions - Latest release: 3 months ago - 24.1 thousand downloads total - 1 maintainer
LOBSTAHS 1.36.0
Lipid and Oxylipin Biomarker Screening through Adduct Hierarchy Sequences
7 versions - Latest release: 3 months ago - 17.7 thousand downloads total - 3 maintainers
Top 2.8% on bioconductor.org
DECIPHER 3.6.0
Tools for curating, analyzing, and manipulating biological sequences
6 versions - Latest release: 3 months ago - 7 dependent packages - 357 thousand downloads total - 1 maintainer
Top 8.7% on bioconductor.org
biobroom 1.42.0
Turn Bioconductor objects into tidy data frames
6 versions - Latest release: 4 months ago - 1 dependent package - 48.1 thousand downloads total - 50 stars on GitHub - 1 maintainer
roastgsa 1.8.0
Rotation based gene set analysis
5 versions - Latest release: 3 months ago - 5.83 thousand downloads total - 0 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: 4 months ago - 8 dependent packages - 853 thousand downloads total - 7 stars on GitHub - 1 maintainer
Top 6.7% on bioconductor.org
mia 1.18.0
Microbiome analysis
7 versions - Latest release: 3 months ago - 7 dependent packages - 210 thousand downloads total - 53 stars on GitHub - 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: 2 months ago - 251 dependent packages - 5.15 million downloads total - 1 maintainer
alabaster.ranges 1.10.0
Load and Save Ranges-related Artifacts from File
8 versions - Latest release: 3 months ago - 2 dependent packages - 123 thousand downloads total - 1 maintainer
Top 5.3% on bioconductor.org
puma 3.52.0
Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and ex...
6 versions - Latest release: 3 months ago - 1 dependent package - 56.5 thousand downloads total - 1 maintainer
QSutils 1.28.0
Quasispecies Diversity
6 versions - Latest release: 3 months ago - 28 thousand downloads total - 1 maintainer
Top 3.9% on bioconductor.org
ctc 1.84.0
Cluster and Tree Conversion.
6 versions - Latest release: 3 months ago - 2 dependent packages - 104 thousand downloads total - 1 maintainer
systemPipeShiny 1.20.0
systemPipeShiny: An Interactive Framework for Workflow Management and Visualization
6 versions - Latest release: 4 months ago - 10.9 thousand downloads total - 1 maintainer
TRONCO 2.42.0
TRONCO, an R package for TRanslational ONCOlogy
7 versions - Latest release: 3 months ago - 26.1 thousand downloads total - 1 maintainer
Streamer 1.56.0
Enabling stream processing of large files
6 versions - Latest release: 3 months ago - 31 thousand downloads total - 1 maintainer
Top 4.5% on bioconductor.org
ReadqPCR 1.56.0
Read qPCR data
6 versions - Latest release: 3 months ago - 1 dependent package - 69.2 thousand downloads total - 1 maintainer
MSstatsConvert 1.20.0
Import Data from Various Mass Spectrometry Signal Processing Tools to MSstats Format
9 versions - Latest release: 4 months ago - 6 dependent packages - 44.3 thousand downloads total - 1 maintainer
Top 2.1% on bioconductor.org
scuttle 1.20.0
Single-Cell RNA-Seq Analysis Utilities
6 versions - Latest release: 3 months ago - 41 dependent packages - 1.08 million downloads total - 1 maintainer
edge 2.42.0
Extraction of Differential Gene Expression
6 versions - Latest release: 4 months ago - 30.8 thousand downloads total - 20 stars on GitHub - 2 maintainers
RcwlPipelines 1.26.0
Bioinformatics pipelines based on Rcwl
7 versions - Latest release: 3 months ago - 1 dependent package - 14.1 thousand downloads total - 1 maintainer
CellScore 1.30.0
Tool for Evaluation of Cell Identity from Transcription Profiles
6 versions - Latest release: 3 months ago - 12.4 thousand downloads total - 1 maintainer
hdxmsqc 1.6.0
An R package for quality Control for hydrogen deuterium exchange mass spectrometry experiments
5 versions - Latest release: 4 months ago - 3.98 thousand downloads total - 0 stars on GitHub - 1 maintainer
CTexploreR 1.6.0
Explores Cancer Testis Genes
4 versions - Latest release: 3 months ago - 5.14 thousand downloads total - 0 stars on GitHub - 1 maintainer
chevreulPlot 1.2.0
Plots used in the chevreulPlot package
2 versions - Latest release: 3 months ago - 2.75 thousand downloads total - 0 stars on GitHub - 1 maintainer
chevreulShiny 1.2.0
Tools for managing SingleCellExperiment objects as projects
3 versions - Latest release: 2 months ago - 2.64 thousand downloads total - 0 stars on GitHub - 1 maintainer
MsBackendMsp 1.14.0
Mass Spectrometry Data Backend for NIST msp Files
6 versions - Latest release: 4 months ago - 18.4 thousand downloads total - 5 stars on GitHub - 1 maintainer
msgbsR 1.34.0
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions
6 versions - Latest release: 4 months ago - 15.9 thousand downloads total - 1 maintainer
alabaster.bumpy 1.10.0
Save and Load BumpyMatrices to/from file
7 versions - Latest release: 4 months ago - 1 dependent package - 7.56 thousand downloads total - 1 maintainer
Top 9.1% on bioconductor.org
codelink 1.78.0
Manipulation of Codelink microarray data
6 versions - Latest release: 4 months ago - 1 dependent package - 44.5 thousand downloads total - 0 stars on GitHub - 2 maintainers
StructuralVariantAnnotation 1.26.0
Variant annotations for structural variants
6 versions - Latest release: 4 months ago - 3 dependent packages - 30.9 thousand downloads total - 1 maintainer
flowTime 1.34.0
Annotation and analysis of biological dynamical systems using flow cytometry
6 versions - Latest release: 3 months ago - 17.2 thousand downloads total - 1 maintainer
Top 6.4% on bioconductor.org
hpar 1.52.0
Human Protein Atlas in R
6 versions - Latest release: 3 months ago - 3 dependent packages - 71.9 thousand downloads total - 1 maintainer
alabaster.base 1.10.0
Save Bioconductor Objects to File
9 versions - Latest release: 4 months ago - 11 dependent packages - 139 thousand downloads total - 4 stars on GitHub - 1 maintainer
AnnotationHubData 1.40.0
Transform public data resources into Bioconductor Data Structures
7 versions - Latest release: 3 months ago - 4 dependent packages - 59.6 thousand downloads total - 1 maintainer
Top 4.6% on bioconductor.org
chipseq 1.60.0
chipseq: A package for analyzing chipseq data
6 versions - Latest release: 3 months ago - 4 dependent packages - 148 thousand downloads total - 1 maintainer
R4RNA 1.38.0
An R package for RNA visualization and analysis
6 versions - Latest release: 3 months ago - 2 dependent packages - 57.7 thousand downloads total - 1 maintainer
CONFESS 1.38.0
Cell OrderiNg by FluorEScence Signal
6 versions - Latest release: 3 months ago - 18.7 thousand downloads total - 1 maintainer
GeomxTools 3.14.0
NanoString GeoMx Tools
9 versions - Latest release: 4 months ago - 3 dependent packages - 35.3 thousand downloads total - 1 maintainer
MDTS 1.30.0
Detection of de novo deletion in targeted sequencing trios
6 versions - Latest release: 3 months ago - 13.8 thousand downloads total - 1 maintainer
MsExperiment 1.12.0
Infrastructure for Mass Spectrometry Experiments
7 versions - Latest release: 3 months ago - 2 dependent packages - 63.3 thousand downloads total - 5 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: 3 months ago - 58 thousand downloads total - 1 maintainer
gDR 1.8.0
Umbrella package for R packages in the gDR suite
6 versions - Latest release: 4 months ago - 5.71 thousand downloads total - 2 stars on GitHub - 1 maintainer
BayesSpace 1.20.2
Clustering and Resolution Enhancement of Spatial Transcriptomes
10 versions - Latest release: about 1 month ago - 1 dependent package - 32.4 thousand downloads total - 154 stars on GitHub - 1 maintainer
Top 5.9% on bioconductor.org
systemPipeR 2.16.3
systemPipeR: Workflow Environment for Data Analysis and Report Generation
8 versions - Latest release: about 1 month ago - 3 dependent packages - 279 thousand downloads total - 54 stars on GitHub - 1 maintainer
TPP2D 1.26.0
Detection of ligand-protein interactions from 2D thermal profiles (DLPTP)
7 versions - Latest release: 3 months ago - 11.4 thousand downloads total - 1 maintainer
Top 8.2% on bioconductor.org
zellkonverter 1.20.1
Conversion Between scRNA-seq Objects
9 versions - Latest release: about 1 month ago - 6 dependent packages - 141 thousand downloads total - 148 stars on GitHub - 1 maintainer
tanggle 1.16.0
Visualization of Phylogenetic Networks
6 versions - Latest release: 4 months ago - 9.16 thousand downloads total - 10 stars on GitHub - 1 maintainer
BiocIO 1.20.0
Standard Input and Output for Bioconductor Packages
6 versions - Latest release: 3 months ago - 14 dependent packages - 1.96 million downloads total - 1 stars on GitHub - 1 maintainer
SICtools 1.40.0
Find SNV/Indel differences between two bam files with near relationship
6 versions - Latest release: 3 months ago - 18.1 thousand downloads total - 1 maintainer
anndataR 1.0.2
AnnData interoperability in R
3 versions - Latest release: 3 days ago - 4.75 thousand downloads total - 1 maintainer
cellxgenedp 1.14.0
Discover and Access Single Cell Data Sets in the CELLxGENE Data Portal
8 versions - Latest release: 4 months ago - 12.3 thousand downloads total - 8 stars on GitHub - 1 maintainer
Top 9.9% on bioconductor.org
MassArray 1.62.0
Analytical Tools for MassArray Data
6 versions - Latest release: 3 months ago - 32.7 thousand downloads total - 1 maintainer
assorthead 1.4.0
Assorted Header-Only C++ Libraries
4 versions - Latest release: 3 months ago - 333 thousand downloads total - 1 stars on GitHub - 1 maintainer
Basic4Cseq 1.46.0
Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data
6 versions - Latest release: 3 months ago - 30.4 thousand downloads total - 1 maintainer
Top 4.7% on bioconductor.org
RnBeads 2.28.0
RnBeads
6 versions - Latest release: 3 months ago - 1 dependent package - 80.7 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: 3 months ago - 2 dependent packages - 61.3 thousand downloads total - 1 maintainer
faers 1.6.0
R interface for FDA Adverse Event Reporting System
5 versions - Latest release: 4 months ago - 7.07 thousand downloads total - 1 maintainer
SRAdb 1.72.0
A compilation of metadata from NCBI SRA and tools
7 versions - Latest release: 3 months ago - 135 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 8.2% on bioconductor.org
dittoSeq 1.22.0
User Friendly Single-Cell and Bulk RNA Sequencing Visualization
9 versions - Latest release: 3 months ago - 6 dependent packages - 114 thousand downloads total - 1 maintainer
aCGH 1.88.0
Classes and functions for Array Comparative Genomic Hybridization data
6 versions - Latest release: 3 months ago - 5 dependent packages - 80.1 thousand downloads total - 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 - 1.92 million downloads total - 3 stars on GitHub - 1 maintainer
Related Keywords
Software 368 Sequencing 119 Infrastructure 95 GeneExpression 78 DataRepresentation 76 ImmunoOncology 75 QualityControl 72 Visualization 71 Preprocessing 71 SingleCell 62 RNASeq 60 Coverage 46 Transcriptomics 44 Alignment 42 Clustering 40 DifferentialExpression 39 Normalization 39 Proteomics 37 Genetics 36 Microarray 36 bioconductor 33 MassSpectrometry 29 Transcription 29 MultipleComparison 28 Annotation 28 r 27 Metabolomics 26 BiomedicalInformatics 23 ThirdPartyClient 22 TwoChannel 21 SequenceMatching 21 BatchEffect 20 OneChannel 19 FunctionalGenomics 19 ChIPSeq 18 Spatial 18 bioinformatics 18 DNAMethylation 17 Epigenetics 17 Bayesian 16 Regression 16 GeneSetEnrichment 15 Classification 14 SNP 14 GUI 14 GenomeAnnotation 14 Pathways 13 bioconductor-package 13 FlowCytometry 12 SystemsBiology 12 Network 12 TimeCourse 11 CellBiology 11 ProprietaryPlatforms 11 Microbiome 11 GeneRegulation 11 CellBasedAssays 11 WorkflowStep 10 Cheminformatics 10 DifferentialMethylation 10 CopyNumberVariation 10 VariantAnnotation 9 AlternativeSplicing 9 GO 9 mRNAMicroarray 9 MethylationArray 9 ExperimentalDesign 9 rstats 9 HiC 8 StatisticalMethod 8 MethylSeq 8 GraphAndNetwork 8 MicrotitrePlateAssay 8 DimensionReduction 8 WholeGenome 7 KEGG 7 MultipleSequenceAlignment 7 DifferentialSplicing 7 genomics 7 DNASeq 7 ReportWriting 7 u24ca289073 6 ChipOnChip 6 r-package 6 rna-seq 5 PrincipalComponent 5 ATACSeq 5 CpGIsland 5 mass-spectrometry 5 Pharmacogenomics 5 ShinyApps 5 GeneticVariability 5 ExonArray 5 PeakDetection 5 DNA3DStructure 4 Phylogenetics 4 Pharmacogenetics 4 rnaseq 4 Metagenomics 4 GenomeAssembly 4