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bioconductor projects 1,374

bioconductor: XDE
XDE: a Bayesian hierarchical model for cross-study analysis of differential gene expression
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: flowUtils
Papers that mentioned: 4
Unlikely Science (0)
bioconductor: farms
FARMS - Factor Analysis for Robust Microarray Summarization
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: Pigengene
Infers biological signatures from gene expression data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: anota
ANalysis Of Translational Activity (ANOTA).
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: biocViews
Categorized views of R package repositories
Papers that mentioned: 4
Very Likely Science (75)
bioconductor: SPsimSeq
Semi-parametric simulation tool for bulk and single-cell RNA sequencing data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: iASeq
iASeq: integrating multiple sequencing datasets for detecting allele-specific events
Papers that mentioned: 4
Very Likely Science (93)
bioconductor: gespeR
Gene-Specific Phenotype EstimatoR
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: qusage
qusage: Quantitative Set Analysis for Gene Expression
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: rTRM
Identification of Transcriptional Regulatory Modules from Protein-Protein Interaction Networks
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: MLSeq
Machine Learning Interface for RNA-Seq Data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: ncdfFlow
ncdfFlow: A package that provides HDF5 based storage for flow cytometry data.
Papers that mentioned: 4
Very Likely Science (75)
bioconductor: RLMM
A Genotype Calling Algorithm for Affymetrix SNP Arrays
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: MetaboSignal
MetaboSignal: a network-based approach to overlay and explore metabolic and signaling KEGG pathways
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: sigFeature
sigFeature: Significant feature selection using SVM-RFE & t-statistic
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: pathwayPCA
Integrative Pathway Analysis with Modern PCA Methodology and Gene Selection
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: safe
Significance Analysis of Function and Expression
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: codelink
Manipulation of Codelink microarray data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: ReactomeGSA
Client for the Reactome Analysis Service for comparative multi-omics gene set analysis
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: isobar
Analysis and quantitation of isobarically tagged MSMS proteomics data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: trio
Testing of SNPs and SNP Interactions in Case-Parent Trio Studies
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: philr
Phylogenetic partitioning based ILR transform for metagenomics data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: microbiomeMarker
microbiome biomarker analysis toolkit
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: pwOmics
Pathway-based data integration of omics data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: flowMatch
Matching and meta-clustering in flow cytometry
Papers that mentioned: 4
Very Likely Science (75)
bioconductor: wavClusteR
Sensitive and highly resolved identification of RNA-protein interaction sites in PAR-CLIP data
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: plgem
Detect differential expression in microarray and proteomics datasets with the Power Law Global Error Model (PLGEM)
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: HiCcompare
HiCcompare: Joint normalization and comparative analysis of multiple Hi-C datasets
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: wiggleplotr
Make read coverage plots from BigWig files
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: clusterStab
Compute cluster stability scores for microarray data
Papers that mentioned: 4
Very Likely Science (93)
bioconductor: mCSEA
Methylated CpGs Set Enrichment Analysis
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: CAEN
Category encoding method for selecting feature genes for the classification of single-cell RNA-seq
Papers that mentioned: 4
Very Likely Science (98)
bioconductor: SMAD
Statistical Modelling of AP-MS Data (SMAD)
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: CGHregions
Dimension Reduction for Array CGH Data with Minimal Information Loss.
Papers that mentioned: 4
Very Likely Science (65)
bioconductor: miRLAB
Dry lab for exploring miRNA-mRNA relationships
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: Melissa
Bayesian clustering and imputationa of single cell methylomes
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: TADCompare
TADCompare: Identification and characterization of differential TADs
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: netDx
Network-based patient classifier
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: CytoGLMM
Conditional Differential Analysis for Flow and Mass Cytometry Experiments
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: methylMnM
detect different methylation level (DMR)
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: gwascat
representing and modeling data in the EMBL-EBI GWAS catalog
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: fmcsR
Mismatch Tolerant Maximum Common Substructure Searching
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: struct
Statistics in R Using Class-based Templates
Papers that mentioned: 4
Very Likely Science (68)
bioconductor: timecourse
Statistical Analysis for Developmental Microarray Time Course Data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: infercnv
Infer Copy Number Variation from Single-Cell RNA-Seq Data
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: EBSeqHMM
Bayesian analysis for identifying gene or isoform expression changes in ordered RNA-seq experiments
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: REMP
Repetitive Element Methylation Prediction
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: CytoML
A GatingML Interface for Cross Platform Cytometry Data Sharing
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: kissDE
Retrieves Condition-Specific Variants in RNA-Seq Data
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: BgeeDB
Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology
Papers that mentioned: 4
Very Likely Science (100)
bioconductor: flowFP
Fingerprinting for Flow Cytometry
Papers that mentioned: 4
Very Likely Science (73)
bioconductor: Qtlizer
Comprehensive QTL annotation of GWAS results
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: annaffy
Annotation tools for Affymetrix biological metadata
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: frmaTools
Frozen RMA Tools
Papers that mentioned: 4
Very Likely Science (90)
bioconductor: ChIPXpress
ChIPXpress: enhanced transcription factor target gene identification from ChIP-seq and ChIP-chip data using publicly available gene expression profiles
Papers that mentioned: 3
Very Likely Science (85)
bioconductor: CHRONOS
CHRONOS: A time-varying method for microRNA-mediated sub-pathway enrichment analysis
Papers that mentioned: 3
Very Likely Science (75)
bioconductor: diffGeneAnalysis
Performs differential gene expression Analysis
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: tweeDEseq
RNA-seq data analysis using the Poisson-Tweedie family of distributions
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: DEsubs
DEsubs: an R package for flexible identification of differentially expressed subpathways using RNA-seq expression experiments
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: rcellminer
rcellminer: Molecular Profiles, Drug Response, and Chemical Structures for the NCI-60 Cell Lines
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: polyester
Simulate RNA-seq reads
Papers that mentioned: 3
Very Likely Science (98)
bioconductor: CONSTANd
Data normalization by matrix raking
Papers that mentioned: 3
Very Likely Science (90)
bioconductor: mdp
Molecular Degree of Perturbation calculates scores for transcriptome data samples based on their perturbation from controls
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: DFP
Gene Selection
Papers that mentioned: 3
Very Likely Science (90)
bioconductor: SummarizedBenchmark
Classes and methods for performing benchmark comparisons
Papers that mentioned: 3
Very Likely Science (79)
bioconductor: rsbml
R support for SBML, using libsbml
Papers that mentioned: 3
Very Likely Science (90)
bioconductor: subSeq
Subsampling of high-throughput sequencing count data
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: Rqc
Quality Control Tool for High-Throughput Sequencing Data
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: flowPloidy
Analyze flow cytometer data to determine sample ploidy
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: DEqMS
a tool to perform statistical analysis of differential protein expression for quantitative proteomics data.
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: OmnipathR
OmniPath web service client and more
Papers that mentioned: 3
Likely Science (40)
bioconductor: MicrobiotaProcess
A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: massiR
massiR: MicroArray Sample Sex Identifier
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: GeneRegionScan
GeneRegionScan
Papers that mentioned: 3
Very Likely Science (90)
bioconductor: caOmicsV
Papers that mentioned: 3
Unlikely Science (0)
bioconductor: HilbertVis
Hilbert curve visualization
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: inveRsion
Papers that mentioned: 3
Unlikely Science (0)
bioconductor: qsmooth
Smooth quantile normalization
Papers that mentioned: 3
Very Likely Science (98)
bioconductor: FamAgg
Pedigree Analysis and Familial Aggregation
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: Pviz
Peptide Annotation and Data Visualization using Gviz
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: cosmiq
cosmiq - COmbining Single Masses Into Quantities
Papers that mentioned: 3
Very Likely Science (75)
bioconductor: cmapR
CMap Tools in R
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: annotationTools
Annotate microarrays and perform cross-species gene expression analyses using flat file databases
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: iBBiG
Iterative Binary Biclustering of Genesets
Papers that mentioned: 3
Very Likely Science (98)
bioconductor: IdeoViz
Plots data (continuous/discrete) along chromosomal ideogram
Papers that mentioned: 3
Very Likely Science (65)
bioconductor: imageHTS
Analysis of high-throughput microscopy-based screens
Papers that mentioned: 3
Very Likely Science (75)
bioconductor: CNEr
CNE Detection and Visualization
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: ExiMiR
R functions for the normalization of Exiqon miRNA array data
Papers that mentioned: 3
Very Likely Science (90)
bioconductor: PERFect
Permutation filtration for microbiome data
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: quantsmooth
Quantile smoothing and genomic visualization of array data
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: maser
Mapping Alternative Splicing Events to pRoteins
Papers that mentioned: 3
Very Likely Science (90)
bioconductor: chromstaR
Combinatorial and Differential Chromatin State Analysis for ChIP-Seq Data
Papers that mentioned: 3
Very Likely Science (93)
bioconductor: LPE
Methods for analyzing microarray data using Local Pooled Error (LPE) method
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: diffuStats
Diffusion scores on biological networks
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: scClassify
scClassify: single-cell Hierarchical Classification
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: BAGS
A Bayesian Approach for Geneset Selection
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: iGC
An integrated analysis package of Gene expression and Copy number alteration
Papers that mentioned: 3
Very Likely Science (100)
bioconductor: MDTS
Detection of de novo deletion in targeted sequencing trios
Papers that mentioned: 3
Very Likely Science (83)
bioconductor: meshes
MeSH Enrichment and Semantic analyses
Papers that mentioned: 3
Very Likely Science (85)