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bioconductor.org "DataImport" keyword

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

Top 1.3% on bioconductor.org
ShortRead 1.66.0
FASTQ input and manipulation
6 versions - Latest release: 3 months ago - 36 dependent packages - 1.78 million downloads total - 1 maintainer
SPIAT 1.10.0
Spatial Image Analysis of Tissues
9 versions - Latest release: 3 months ago - 8.65 thousand downloads total - 23 stars on GitHub - 1 maintainer
seahtrue 1.2.0
Seahtrue revives XF data for structured data analysis
2 versions - Latest release: 3 months ago - 2.14 thousand downloads total - 0 stars on GitHub - 1 maintainer
recount3 1.18.0
Explore and download data from the recount3 project
5 versions - Latest release: 3 months ago - 23.5 thousand downloads total - 35 stars on GitHub - 1 maintainer
ReactomeContentService4R 1.16.0
Interface for the Reactome Content Service
5 versions - Latest release: 3 months ago - 1 dependent package - 7.15 thousand downloads total - 4 stars on GitHub - 1 maintainer
scPipe 2.8.0
Pipeline for single cell multi-omic data pre-processing
5 versions - Latest release: 3 months ago - 20.8 thousand downloads total - 69 stars on GitHub - 1 maintainer
Top 6.0% on bioconductor.org
BioNet 1.68.0
Routines for the functional analysis of biological networks
5 versions - Latest release: 3 months ago - 3 dependent packages - 73.6 thousand downloads total - 1 maintainer
RImmPort 1.36.0
RImmPort: Enabling Ready-for-analysis Immunology Research Data
5 versions - Latest release: 3 months ago - 13.5 thousand downloads total - 2 maintainers
iSEEhub 1.10.0
iSEE for the Bioconductor ExperimentHub
5 versions - Latest release: 2 months ago - 7.26 thousand downloads total - 3 stars on GitHub - 1 maintainer
CoSIA 1.8.0
An Investigation Across Different Species and Tissues
6 versions - Latest release: 3 months ago - 3.41 thousand downloads total - 1 maintainer
Top 4.8% on bioconductor.org
affylmGUI 1.82.0
GUI for limma Package with Affymetrix Microarrays
5 versions - Latest release: 3 months ago - 74.1 thousand downloads total - 1 maintainer
cbpManager 1.16.0
Generate, manage, and edit data and metadata files suitable for the import in cBioPortal for Canc...
5 versions - Latest release: 3 months ago - 7.98 thousand downloads total - 9 stars on GitHub - 1 maintainer
SynExtend 1.20.2
Tools for Working With Synteny Objects
6 versions - Latest release: 2 months ago - 8.82 thousand downloads total - 1 stars on GitHub - 1 maintainer
recoup 1.36.0
An R package for the creation of complex genomic profile plots
5 versions - Latest release: 3 months ago - 15.6 thousand downloads total - 1 stars on GitHub - 1 maintainer
cytoMEM 1.12.0
Marker Enrichment Modeling (MEM)
5 versions - Latest release: 3 months ago - 6.75 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 6.4% on bioconductor.org
hpar 1.50.0
Human Protein Atlas in R
5 versions - Latest release: 3 months ago - 3 dependent packages - 61.5 thousand downloads total - 1 maintainer
MethTargetedNGS 1.40.0
Perform Methylation Analysis on Next Generation Sequencing Data
5 versions - Latest release: 3 months ago - 16.2 thousand downloads total - 1 maintainer
CONFESS 1.36.0
Cell OrderiNg by FluorEScence Signal
5 versions - Latest release: 3 months ago - 15.6 thousand downloads total - 1 maintainer
biodbHmdb 1.14.0
biodbHmdb, a library for connecting to the HMDB Database
6 versions - Latest release: 3 months ago - 6.45 thousand downloads total - 2 stars on GitHub - 1 maintainer
HubPub 1.16.0
Utilities to create and use Bioconductor Hubs
7 versions - Latest release: 3 months ago - 4 dependent packages - 16.2 thousand downloads total - 3 stars on GitHub - 1 maintainer
limpa 1.0.5
Quantification and Differential Analysis of Proteomics Data
3 versions - Latest release: about 1 month ago - 1.4 thousand downloads total - 1 maintainer
ChIPComp 1.38.0
Quantitative comparison of multiple ChIP-seq datasets
5 versions - Latest release: 3 months ago - 20.7 thousand downloads total - 1 maintainer
pfamAnalyzeR 1.8.0
Identification of domain isotypes in pfam data
5 versions - Latest release: 3 months ago - 1 dependent package - 12.5 thousand downloads total - 1 stars on GitHub - 1 maintainer
Streamer 1.54.0
Enabling stream processing of large files
5 versions - Latest release: 3 months ago - 28 thousand downloads total - 1 maintainer
AMARETTO 1.24.0
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis an...
5 versions - Latest release: 3 months ago - 14.8 thousand downloads total - 1 maintainer
CellScore 1.27.0
Tool for Evaluation of Cell Identity from Transcription Profiles
5 versions - Latest release: 3 months ago - 11.2 thousand downloads total - 1 maintainer
Top 2.9% on bioconductor.org
openCyto 2.20.0
Hierarchical Gating Pipeline for flow cytometry data
6 versions - Latest release: 3 months ago - 8 dependent packages - 162 thousand downloads total - 1 maintainer
Scale4C 1.30.0
Scale4C: an R/Bioconductor package for scale-space transformation of 4C-seq data
5 versions - Latest release: 3 months ago - 12.6 thousand downloads total - 1 maintainer
Top 4.1% on bioconductor.org
makecdfenv 1.84.0
CDF Environment Maker
5 versions - Latest release: 3 months ago - 1 dependent package - 85.2 thousand downloads total - 1 maintainer
Top 6.1% on bioconductor.org
SpatialExperiment 1.18.1
S4 Class for Spatially Resolved -omics Data
6 versions - Latest release: 2 months ago - 36 dependent packages - 188 thousand downloads total - 54 stars on GitHub - 1 maintainer
Top 9.4% on bioconductor.org
R453Plus1Toolbox 1.58.0
A package for importing and analyzing data from Roche's Genome Sequencer System
5 versions - Latest release: 3 months ago - 32.2 thousand downloads total - 1 maintainer
Top 7.5% on bioconductor.org
celda 1.24.0
CEllular Latent Dirichlet Allocation
8 versions - Latest release: 3 months ago - 2 dependent packages - 54.4 thousand downloads total - 133 stars on GitHub - 1 maintainer
IONiseR 2.32.0
Quality Assessment Tools for Oxford Nanopore MinION data
5 versions - Latest release: 3 months ago - 22.7 thousand downloads total - 1 maintainer
RiboDiPA 1.16.0
Differential pattern analysis for Ribo-seq data
5 versions - Latest release: 3 months ago - 7.5 thousand downloads total - 1 maintainer
Doscheda 1.30.0
A DownStream Chemo-Proteomics Analysis Pipeline
5 versions - Latest release: 3 months ago - 13.2 thousand downloads total - 1 maintainer
Top 2.1% on bioconductor.org
mzID 1.46.0
An mzIdentML parser for R
5 versions - Latest release: 3 months ago - 5 dependent packages - 330 thousand downloads total - 1 maintainer
alabaster.sce 1.8.0
Load and Save SingleCellExperiment from File
5 versions - Latest release: 3 months ago - 2 dependent packages - 28 thousand downloads total - 1 maintainer
tRNAdbImport 1.26.0
Importing from tRNAdb and mitotRNAdb as GRanges objects
6 versions - Latest release: 3 months ago - 1 dependent package - 13.1 thousand downloads total - 0 stars on GitHub - 1 maintainer
alabaster.matrix 1.8.0
Load and Save Artifacts from File
7 versions - Latest release: 3 months ago - 2 dependent packages - 80.8 thousand downloads total - 1 maintainer
KnowSeq 1.22.0
KnowSeq R/Bioc package: The Smart Transcriptomic Pipeline
5 versions - Latest release: 3 months ago - 10.7 thousand downloads total - 1 maintainer
Top 8.2% on bioconductor.org
dittoSeq 1.20.0
User Friendly Single-Cell and Bulk RNA Sequencing Visualization
7 versions - Latest release: 3 months ago - 6 dependent packages - 82.1 thousand downloads total - 1 maintainer
SpatialExperimentIO 1.0.0
Read in Xenium, CosMx, MERSCOPE or STARmapPLUS data as SpatialExperiment object
1 version - Latest release: 3 months ago - 1.48 thousand downloads total - 14 stars on GitHub - 1 maintainer
Top 3.6% on bioconductor.org
CNEr 1.43.0
CNE Detection and Visualization
5 versions - Latest release: 3 months ago - 1 dependent package - 285 thousand downloads total - 4 stars on GitHub - 1 maintainer
ProteoDisco 1.14.0
Generation of customized protein variant databases from genomic variants, splice-junctions and ma...
5 versions - Latest release: 3 months ago - 6.15 thousand downloads total - 5 stars on GitHub - 1 maintainer
scDataviz 1.18.0
scDataviz: single cell dataviz and downstream analyses
5 versions - Latest release: 3 months ago - 9.35 thousand downloads total - 63 stars on GitHub - 1 maintainer
singleCellTK 2.18.1
Comprehensive and Interactive Analysis of Single Cell RNA-Seq Data
8 versions - Latest release: about 1 hour ago - 1 dependent package - 26.7 thousand downloads total - 1 maintainer
Top 3.9% on bioconductor.org
ctc 1.82.0
Cluster and Tree Conversion.
5 versions - Latest release: 3 months ago - 2 dependent packages - 98.4 thousand downloads total - 1 maintainer
biscuiteer 1.22.0
Convenience Functions for Biscuit
5 versions - Latest release: 2 months ago - 12.5 thousand downloads total - 6 stars on GitHub - 1 maintainer
Top 6.1% on bioconductor.org
fmcsR 1.50.0
Mismatch Tolerant Maximum Common Substructure Searching
5 versions - Latest release: 3 months ago - 1 dependent package - 60.6 thousand downloads total - 5 stars on GitHub - 1 maintainer
Top 5.4% on bioconductor.org
limmaGUI 1.84.0
GUI for limma Package With Two Color Microarrays
5 versions - Latest release: 3 months ago - 54.8 thousand downloads total - 1 maintainer
metaseqR2 1.20.0
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statisti...
5 versions - Latest release: 3 months ago - 9.84 thousand downloads total - 1 maintainer
TRONCO 2.40.0
TRONCO, an R package for TRanslational ONCOlogy
5 versions - Latest release: 3 months ago - 21.6 thousand downloads total - 1 maintainer
UCSC.utils 1.4.0
Low-level utilities to retrieve data from the UCSC Genome Browser
3 versions - Latest release: 2 months ago - 2 dependent packages - 985 thousand downloads total - 1 maintainer
Guitar 2.24.0
Guitar
5 versions - Latest release: 3 months ago - 26.4 thousand downloads total - 1 maintainer
biodbNci 1.12.0
biodbNci, a library for connecting to biodbNci, a library for connecting to the National Cancer I...
5 versions - Latest release: 3 months ago - 5.94 thousand downloads total - 1 maintainer
NanoStringNCTools 1.16.1
NanoString nCounter Tools
7 versions - Latest release: about 1 hour ago - 2 dependent packages - 23.4 thousand downloads total - 1 maintainer
ASICS 2.24.0
Automatic Statistical Identification in Complex Spectra
7 versions - Latest release: 3 months ago - 18.9 thousand downloads total - 1 maintainer
IWTomics 1.32.0
Interval-Wise Testing for Omics Data
5 versions - Latest release: 3 months ago - 14.6 thousand downloads total - 1 maintainer
biodb 1.16.0
biodb, a library and a development framework for connecting to chemical and biological databases
5 versions - Latest release: 3 months ago - 10 dependent packages - 14.3 thousand downloads total - 11 stars on GitHub - 1 maintainer
SCArray.sat 1.8.0
Large-scale single-cell RNA-seq data analysis using GDS files and Seurat
6 versions - Latest release: 3 months ago - 4.67 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 3.0% on bioconductor.org
cytolib 2.20.0
C++ infrastructure for representing and interacting with the gated cytometry data
8 versions - Latest release: 3 months ago - 3 dependent packages - 272 thousand downloads total - 1 maintainer
Top 2.0% on bioconductor.org
monocle 2.36.0
Clustering, differential expression, and trajectory analysis for single- cell RNA-Seq
6 versions - Latest release: 3 months ago - 6 dependent packages - 393 thousand downloads total - 1 maintainer
Top 9.9% on bioconductor.org
scmap 1.30.0
A tool for unsupervised projection of single cell RNA-seq data
5 versions - Latest release: 3 months ago - 37.1 thousand downloads total - 86 stars on GitHub - 1 maintainer
RcwlPipelines 1.24.0
Bioinformatics pipelines based on Rcwl
6 versions - Latest release: 3 months ago - 1 dependent package - 12 thousand downloads total - 1 maintainer
LoomExperiment 1.26.1
LoomExperiment container
6 versions - Latest release: 2 months ago - 2 dependent packages - 42.4 thousand downloads total - 1 maintainer
Top 3.6% on bioconductor.org
motifStack 1.52.0
Plot stacked logos for single or multiple DNA, RNA and amino acid sequence
5 versions - Latest release: 3 months ago - 10 dependent packages - 127 thousand downloads total - 1 maintainer
SCOPE 1.20.0
A normalization and copy number estimation method for single-cell DNA sequencing
5 versions - Latest release: 3 months ago - 9.18 thousand downloads total - 1 maintainer
alabaster.mae 1.8.0
Load and Save MultiAssayExperiments
5 versions - Latest release: 3 months ago - 1 dependent package - 6.3 thousand downloads total - 1 maintainer
alabaster.vcf 1.8.0
Save and Load Variant Data to/from File
5 versions - Latest release: 3 months ago - 1 dependent package - 5.4 thousand downloads total - 1 maintainer
alabaster.se 1.8.0
Load and Save SummarizedExperiments from File
6 versions - Latest release: 3 months ago - 4 dependent packages - 75.4 thousand downloads total - 1 maintainer
AlpsNMR 4.10.0
Automated spectraL Processing System for NMR
5 versions - Latest release: 3 months ago - 11.1 thousand downloads total - 16 stars on GitHub - 1 maintainer
Top 4.0% on bioconductor.org
RTCGA 1.38.0
The Cancer Genome Atlas Data Integration
5 versions - Latest release: 3 months ago - 1 dependent package - 83.5 thousand downloads total - 51 stars on GitHub - 1 maintainer
CBEA 1.8.0
Competitive Balances for Taxonomic Enrichment Analysis in R
5 versions - Latest release: 3 months ago - 5.4 thousand downloads total - 6 stars on GitHub - 1 maintainer
MoleculeExperiment 1.8.0
Prioritising a molecule-level storage of Spatial Transcriptomics Data
8 versions - Latest release: 3 months ago - 5.6 thousand downloads total - 12 stars on GitHub - 1 maintainer
Top 9.1% on bioconductor.org
codelink 1.76.0
Manipulation of Codelink microarray data
5 versions - Latest release: 3 months ago - 1 dependent package - 40.3 thousand downloads total - 0 stars on GitHub - 2 maintainers
sitadela 1.16.0
An R package for the easy provision of simple but complete tab-delimited genomic annotation from ...
5 versions - Latest release: 3 months ago - 6.49 thousand downloads total - 0 stars on GitHub - 1 maintainer
periodicDNA 1.18.0
Set of tools to identify periodic occurrences of k-mers in DNA sequences
5 versions - Latest release: 3 months ago - 7.65 thousand downloads total - 6 stars on GitHub - 1 maintainer
simPIC 1.4.0
simPIC: flexible simulation of paired-insertion counts for single-cell ATAC-sequencing data
3 versions - Latest release: 3 months ago - 3.38 thousand downloads total - 0 stars on GitHub - 1 maintainer
txdbmaker 1.4.2
Tools for making TxDb objects from genomic annotations
7 versions - Latest release: about 1 month ago - 8 dependent packages - 97.5 thousand downloads total - 1 maintainer
Top 8.7% on bioconductor.org
biobroom 1.40.0
Turn Bioconductor objects into tidy data frames
5 versions - Latest release: 3 months ago - 1 dependent package - 35.8 thousand downloads total - 49 stars on GitHub - 1 maintainer
CAGEfightR 1.28.0
Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor
5 versions - Latest release: 3 months ago - 1 dependent package - 26.1 thousand downloads total - 8 stars on GitHub - 1 maintainer
schex 1.22.0
Hexbin plots for single cell omics data
6 versions - Latest release: 3 months ago - 3 dependent packages - 19.4 thousand downloads total - 74 stars on GitHub - 1 maintainer
Top 5.6% on bioconductor.org
HTqPCR 1.62.0
Automated analysis of high-throughput qPCR data
5 versions - Latest release: 3 months ago - 2 dependent packages - 56.9 thousand downloads total - 1 maintainer
tRNAscanImport 1.28.0
Importing a tRNAscan-SE result file as GRanges object
5 versions - Latest release: 2 months ago - 2 dependent packages - 12.3 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 3.1% on bioconductor.org
Rhtslib 3.4.0
HTSlib high-throughput sequencing library as an R package
6 versions - Latest release: 3 months ago - 5 dependent packages - 3.11 million downloads total - 1 maintainer
RGMQL 1.28.0
GenoMetric Query Language for R/Bioconductor
6 versions - Latest release: 3 months ago - 8.39 thousand downloads total - 1 maintainer
ENmix 1.44.3
Quality control and analysis tools for Illumina DNA methylation BeadChip
9 versions - Latest release: about 2 hours ago - 38.7 thousand downloads total - 1 maintainer
IsoformSwitchAnalyzeR 2.8.0
Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- a...
5 versions - Latest release: 3 months ago - 38.7 thousand downloads total - 1 maintainer
CTdata 1.8.0
Data companion to CTexploreR
5 versions - Latest release: 3 months ago - 1 dependent package - 4.65 thousand downloads total - 1 stars on GitHub - 1 maintainer
matter 2.10.0
Out-of-core statistical computing and signal processing
9 versions - Latest release: 3 months ago - 2 dependent packages - 27.1 thousand downloads total - 52 stars on GitHub - 1 maintainer
alabaster.ranges 1.8.0
Load and Save Ranges-related Artifacts from File
7 versions - Latest release: 3 months ago - 2 dependent packages - 76.7 thousand downloads total - 1 maintainer
MACSQuantifyR 1.22.0
Fast treatment of MACSQuantify FACS data
5 versions - Latest release: 3 months ago - 7.76 thousand downloads total - 1 maintainer
alabaster 1.8.0
Umbrella for the Alabaster Framework
5 versions - Latest release: 3 months ago - 4.9 thousand downloads total - 1 maintainer
SRAdb 1.70.0
A compilation of metadata from NCBI SRA and tools
6 versions - Latest release: 3 months ago - 123 thousand downloads total - 1 stars on GitHub - 1 maintainer
flowTime 1.32.0
Annotation and analysis of biological dynamical systems using flow cytometry
5 versions - Latest release: 3 months ago - 14.4 thousand downloads total - 1 maintainer
rexposome 1.30.0
Exposome exploration and outcome data analysis
5 versions - Latest release: 3 months ago - 1 dependent package - 15.3 thousand downloads total - 1 maintainer
Top 2.3% on bioconductor.org
flowWorkspace 4.20.0
Infrastructure for representing and interacting with gated and ungated cytometry data sets.
9 versions - Latest release: 3 months ago - 13 dependent packages - 296 thousand downloads total - 2 maintainers
basecallQC 1.32.0
Working with Illumina Basecalling and Demultiplexing input and output files
5 versions - Latest release: 3 months ago - 16 thousand downloads total - 1 maintainer
ExperimentSubset 1.18.1
Manages subsets of data with Bioconductor Experiment objects
6 versions - Latest release: 2 months ago - 8.19 thousand downloads total - 1 maintainer
transomics2cytoscape 1.18.0
A tool set for 3D Trans-Omic network visualization with Cytoscape
6 versions - Latest release: 3 months ago - 8.09 thousand downloads total - 1 maintainer
Related Keywords
Software 353 Sequencing 114 Infrastructure 93 GeneExpression 75 DataRepresentation 75 ImmunoOncology 73 QualityControl 66 Visualization 66 Preprocessing 66 RNASeq 59 SingleCell 57 Coverage 46 Alignment 42 Transcriptomics 41 DifferentialExpression 37 Clustering 37 Proteomics 36 Genetics 36 Microarray 36 Normalization 35 bioconductor 33 Transcription 29 Annotation 28 r 27 MassSpectrometry 26 MultipleComparison 25 Metabolomics 22 TwoChannel 21 ThirdPartyClient 21 SequenceMatching 20 BiomedicalInformatics 19 OneChannel 19 ChIPSeq 18 FunctionalGenomics 17 bioinformatics 17 BatchEffect 17 DNAMethylation 16 Epigenetics 16 Regression 15 GeneSetEnrichment 15 Bayesian 15 SNP 14 Spatial 14 GUI 14 Pathways 13 Classification 13 FlowCytometry 12 GenomeAnnotation 12 SystemsBiology 12 bioconductor-package 12 TimeCourse 11 CellBasedAssays 11 Network 11 GeneRegulation 11 ProprietaryPlatforms 11 Microbiome 10 WorkflowStep 10 CellBiology 10 DifferentialMethylation 10 CopyNumberVariation 10 Cheminformatics 10 AlternativeSplicing 9 GO 9 MethylationArray 9 rstats 9 VariantAnnotation 9 mRNAMicroarray 9 DimensionReduction 8 MethylSeq 8 GraphAndNetwork 8 MicrotitrePlateAssay 8 ExperimentalDesign 8 DifferentialSplicing 7 HiC 7 StatisticalMethod 7 DNASeq 7 genomics 7 WholeGenome 7 MultipleSequenceAlignment 7 KEGG 7 ReportWriting 7 ChipOnChip 6 r-package 6 CpGIsland 5 Pharmacogenomics 5 ExonArray 5 u24ca289073 5 rna-seq 5 GeneticVariability 5 ATACSeq 5 ShinyApps 5 PrincipalComponent 5 shiny 4 sequences 4 Pharmacogenetics 4 FunctionalPrediction 4 GenomeAssembly 4 MultiChannel 4 MotifAnnotation 4 Metagenomics 4