bioconductor projects 1,374
bioconductor: bigmelon
Illumina methylation array analysis for large experimentsPapers that mentioned: 7
Very Likely Science (100)
Very Likely Science (98)
bioconductor: r3Cseq
Analysis of Chromosome Conformation Capture and Next-generation Sequencing (3C-seq)Papers that mentioned: 7
Very Likely Science (83)
bioconductor: DaMiRseq
Data Mining for RNA-seq data: normalization, feature selection and classificationPapers that mentioned: 7
Very Likely Science (90)
Very Likely Science (90)
bioconductor: STATegRa
Classes and methods for multi-omics data integrationPapers that mentioned: 7
Very Likely Science (90)
Very Likely Science (100)
Very Likely Science (100)
bioconductor: RDRToolbox
A package for nonlinear dimension reduction with Isomap and LLE.Papers that mentioned: 7
Very Likely Science (90)
bioconductor: scPipe
Pipeline for single cell multi-omic data pre-processingPapers that mentioned: 7
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (90)
Very Likely Science (100)
bioconductor: GenomeInfoDb
Utilities for manipulating chromosome names, including modifying them to follow a particular naming stylePapers that mentioned: 7
Very Likely Science (65)
bioconductor: iChip
Bayesian Modeling of ChIP-chip Data Through Hidden Ising ModelsPapers that mentioned: 7
Very Likely Science (75)
bioconductor: SingleCellSignalR
Cell Signalling Using Single Cell RNAseq Data AnalysisPapers that mentioned: 7
Very Likely Science (100)
bioconductor: flowCyBar
Analyze flow cytometric data using gate informationPapers that mentioned: 7
Very Likely Science (90)
Very Likely Science (100)
Very Likely Science (100)
bioconductor: IMAS
Integrative analysis of Multi-omics data for Alternative SplicingPapers that mentioned: 7
Very Likely Science (100)
bioconductor: ExpressionAtlas
Download datasets from EMBL-EBI Expression AtlasPapers that mentioned: 7
Very Likely Science (100)
bioconductor: CNVPanelizer
Reliable CNV detection in targeted sequencing applicationsPapers that mentioned: 7
Very Likely Science (100)
bioconductor: CNVrd2
CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.Papers that mentioned: 7
Very Likely Science (100)
bioconductor: DiffLogo
DiffLogo: A comparative visualisation of biooligomer motifsPapers that mentioned: 7
Very Likely Science (100)
Very Likely Science (98)
Very Likely Science (90)
Very Likely Science (98)
bioconductor: customProDB
Generate customized protein database from NGS data, with a focus on RNA-Seq data, for proteomics searchPapers that mentioned: 7
Very Likely Science (100)
bioconductor: ArrayExpressHTS
ArrayExpress High Throughput Sequencing Processing PipelinePapers that mentioned: 7
Very Likely Science (91)
bioconductor: CARNIVAL
A CAusal Reasoning tool for Network Identification (from gene expression data) using Integer VALue programmingPapers that mentioned: 7
Very Likely Science (100)
bioconductor: CGHnormaliter
Normalization of array CGH data with imbalanced aberrations.Papers that mentioned: 7
Very Likely Science (90)
Very Likely Science (75)
Very Likely Science (100)
bioconductor: CellBench
Construct Benchmarks for Single Cell Analysis MethodsPapers that mentioned: 7
Very Likely Science (100)
Very Likely Science (100)
bioconductor: FGNet
Functional Gene Networks derived from biological enrichment analysesPapers that mentioned: 7
Very Likely Science (100)
bioconductor: exomeCopy
Copy number variant detection from exome sequencing read depthPapers that mentioned: 7
Very Likely Science (100)
bioconductor: SwathXtend
SWATH extended library generation and statistical data analysisPapers that mentioned: 7
Very Likely Science (85)
bioconductor: gemini
GEMINI: Variational inference approach to infer genetic interactions from pairwise CRISPR screensPapers that mentioned: 7
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (90)
Very Likely Science (100)
bioconductor: RVS
Computes estimates of the probability of related individuals sharing a rare variantPapers that mentioned: 6
Very Likely Science (90)
bioconductor: SIAMCAT
Statistical Inference of Associations between Microbial Communities And host phenoTypesPapers that mentioned: 6
Very Likely Science (100)
bioconductor: DMRforPairs
DMRforPairs: identifying Differentially Methylated Regions between unique samples using array based methylation profilesPapers that mentioned: 6
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (100)
bioconductor: NPARC
Non-parametric analysis of response curves for thermal proteome profiling experimentsPapers that mentioned: 6
Very Likely Science (100)
bioconductor: OCplus
Operating characteristics plus sample size and local fdr for microarray experimentsPapers that mentioned: 6
Very Likely Science (100)
bioconductor: DelayedArray
A unified framework for working transparently with on-disk and in-memory array-like datasetsPapers that mentioned: 6
Very Likely Science (75)
bioconductor: stageR
stageR: stage-wise analysis of high throughput gene expression data in RPapers that mentioned: 6
Very Likely Science (75)
bioconductor: splatter
Simple Simulation of Single-cell RNA Sequencing DataPapers that mentioned: 6
Very Likely Science (100)
Very Likely Science (93)
bioconductor: coRdon
Codon Usage Analysis and Prediction of Gene ExpressivityPapers that mentioned: 6
Very Likely Science (100)
bioconductor: derfinder
Annotation-agnostic differential expression analysis of RNA-seq data at base-pair resolution via the DER Finder approachPapers that mentioned: 6
Very Likely Science (100)
bioconductor: tspair
Papers that mentioned: 6
Unlikely Science (0)
Very Likely Science (90)
Very Likely Science (100)
bioconductor: INSPEcT
Modeling RNA synthesis, processing and degradation with RNA-seq dataPapers that mentioned: 6
Very Likely Science (100)
Very Likely Science (75)
Very Likely Science (100)
Very Likely Science (90)
bioconductor: crlmm
Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arraysPapers that mentioned: 6
Very Likely Science (100)
bioconductor: cydar
Using Mass Cytometry for Differential Abundance AnalysesPapers that mentioned: 6
Very Likely Science (100)
bioconductor: countsimQC
Compare Characteristic Features of Count Data SetsPapers that mentioned: 6
Very Likely Science (100)
bioconductor: qPLEXanalyzer
Tools for quantitative proteomics data analysisPapers that mentioned: 6
Very Likely Science (100)
bioconductor: phenoTest
Tools to test association between gene expression and phenotype in a way that is efficient, structured, fast and scalable. We also provide tools to do GSEA (Gene set enrichment analysis) and copy number variation.Papers that mentioned: 6
Very Likely Science (100)
bioconductor: IsoCorrectoR
Correction for natural isotope abundance and tracer purity in MS and MS/MS data from stable isotope labeling experimentsPapers that mentioned: 6
Very Likely Science (85)
Very Likely Science (100)
bioconductor: InteractionSet
Base Classes for Storing Genomic Interaction DataPapers that mentioned: 6
Very Likely Science (75)
bioconductor: miRNAmeConverter
Convert miRNA Names to Different miRBase VersionsPapers that mentioned: 6
Very Likely Science (75)
bioconductor: BrainStars
Papers that mentioned: 6
Unlikely Science (0)
Very Likely Science (98)
Very Likely Science (98)
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (100)
bioconductor: MEB
A normalization-invariant minimum enclosing ball method to detect differentially expressed genes for RNA-seq and scRNA-seq dataPapers that mentioned: 6
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (100)
Very Likely Science (100)
bioconductor: CAGEfightR
Analysis of Cap Analysis of Gene Expression (CAGE) data using BioconductorPapers that mentioned: 6
Very Likely Science (100)
Very Likely Science (100)
bioconductor: flowTrans
Parameter Optimization for Flow Cytometry Data TransformationPapers that mentioned: 6
Very Likely Science (85)
bioconductor: tradeSeq
trajectory-based differential expression analysis for sequencing dataPapers that mentioned: 6
Very Likely Science (100)
bioconductor: AffyRNADegradation
Analyze and correct probe positional bias in microarray data due to RNA degradationPapers that mentioned: 6
Very Likely Science (100)
bioconductor: BCRANK
Predicting binding site consensus from ranked DNA sequencesPapers that mentioned: 6
Very Likely Science (75)
Very Likely Science (100)
bioconductor: seqTools
Analysis of nucleotide, sequence and quality content on fastq filesPapers that mentioned: 6
Very Likely Science (100)
bioconductor: autonomics
Generifying and intuifying cross-platform omics analysisPapers that mentioned: 6
Very Likely Science (100)
Very Likely Science (100)
bioconductor: FitHiC
Confidence estimation for intra-chromosomal contact mapsPapers that mentioned: 6
Likely Science (58)
bioconductor: synergyfinder
Calculate and Visualize Synergy Scores for Drug CombinationsPapers that mentioned: 6
Very Likely Science (90)
bioconductor: drawProteins
Package to Draw Protein Schematics from Uniprot API outputPapers that mentioned: 6
Very Likely Science (100)
bioconductor: AMARETTO
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized RegressionPapers that mentioned: 5
Very Likely Science (70)
bioconductor: switchde
Switch-like differential expression across single-cell trajectoriesPapers that mentioned: 5
Very Likely Science (100)