bioconductor.org "StatisticalMethod" keyword
tpSVG 1.6.0
Thin plate models to detect spatially variable genes5 versions - Latest release: 4 months ago - 4.86 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 3.7% on bioconductor.org
6 versions - Latest release: 4 months ago - 2 dependent packages - 110 thousand downloads total - 1 maintainer
safe 3.50.0
Significance Analysis of Function and Expression6 versions - Latest release: 4 months ago - 2 dependent packages - 110 thousand downloads total - 1 maintainer
Top 1.7% on bioconductor.org
7 versions - Latest release: 4 months ago - 43 dependent packages - 1.17 million downloads total - 3 maintainers
sva 3.58.0
Surrogate Variable Analysis7 versions - Latest release: 4 months ago - 43 dependent packages - 1.17 million downloads total - 3 maintainers
CIMICE 1.18.0
CIMICE-R: (Markov) Chain Method to Inferr Cancer Evolution6 versions - Latest release: 3 months ago - 8.64 thousand downloads total - 0 stars on GitHub - 1 maintainer
consICA 2.8.0
consensus Independent Component Analysis6 versions - Latest release: 4 months ago - 8.87 thousand downloads total - 0 stars on GitHub - 1 maintainer
TrajectoryGeometry 1.18.0
This Package Discovers Directionality in Time and Pseudo-times Series of Gene Expression Patterns8 versions - Latest release: 4 months ago - 7.48 thousand downloads total - 1 maintainer
YAPSA 1.36.1
Yet Another Package for Signature Analysis7 versions - Latest release: 3 months ago - 28.7 thousand downloads total - 1 maintainer
DifferentialRegulation 2.8.0
Differentially regulated genes from scRNA-seq data10 versions - Latest release: 3 months ago - 8.28 thousand downloads total - 11 stars on GitHub - 1 maintainer
limpca 1.6.0
An R package for the linear modeling of high-dimensional designed data based on ASCA/APCA family ...4 versions - Latest release: 4 months ago - 4.96 thousand downloads total - 2 stars on GitHub - 1 maintainer
jazzPanda 1.2.0
Finding spatially relevant marker genes in image based spatial transcriptomics data4 versions - Latest release: 3 months ago - 3.2 thousand downloads total - 0 stars on GitHub - 1 maintainer
decoupleR 2.16.0
decoupleR: Ensemble of computational methods to infer biological activities from omics data7 versions - Latest release: 4 months ago - 3 dependent packages - 82.7 thousand downloads total - 281 stars on GitHub - 1 maintainer
treeclimbR 1.6.0
An algorithm to find optimal signal levels in a tree5 versions - Latest release: 4 months ago - 5.12 thousand downloads total - 20 stars on GitHub - 1 maintainer
QRscore 1.2.0
Quantile Rank Score2 versions - Latest release: 4 months ago - 2.69 thousand downloads total - 0 stars on GitHub - 1 maintainer
HiCPotts 1.0.0
HiCPotts: Hierarchical Modeling to Identify and Correct Genomic Biases in Hi-C1 version - Latest release: 4 months ago - 799 downloads total - 0 stars on GitHub - 1 maintainer
npGSEA 1.46.0
Permutation approximation methods for gene set enrichment analysis (non-permutation GSEA)6 versions - Latest release: 4 months ago - 25.6 thousand downloads total - 1 maintainer
swfdr 1.36.0
Estimation of the science-wise false discovery rate and the false discovery rate conditional on c...6 versions - Latest release: 3 months ago - 16.7 thousand downloads total - 3 stars on GitHub - 2 maintainers
plotGrouper 1.28.0
Shiny app GUI wrapper for ggplot with built-in statistical analysis6 versions - Latest release: 3 months ago - 11.9 thousand downloads total - 6 stars on GitHub - 1 maintainer
mogsa 1.44.0
Multiple omics data integrative clustering and gene set analysis6 versions - Latest release: 4 months ago - 30.5 thousand downloads total - 1 maintainer
DeMAND 1.40.0
DeMAND6 versions - Latest release: 3 months ago - 17.7 thousand downloads total - 2 maintainers
Top 9.4% on bioconductor.org
6 versions - Latest release: 3 months ago - 34.1 thousand downloads total - 1 maintainer
MeasurementError.cor 1.82.0
Measurement Error model estimate for correlation coefficient6 versions - Latest release: 3 months ago - 34.1 thousand downloads total - 1 maintainer
SPOTlight 1.14.0
`SPOTlight`: Spatial Transcriptomics Deconvolution10 versions - Latest release: 3 months ago - 19.2 thousand downloads total - 199 stars on GitHub - 1 maintainer
glmSparseNet 1.28.0
Network Centrality Metrics for Elastic-Net Regularized Models7 versions - Latest release: 3 months ago - 107 thousand downloads total - 3 stars on GitHub - 1 maintainer
APL 1.14.0
Association Plots7 versions - Latest release: 3 months ago - 9.51 thousand downloads total - 16 stars on GitHub - 1 maintainer
iterClust 1.26.0 removed
Iterative Clustering3 versions - Latest release: almost 2 years ago - 8.08 thousand downloads total - 1 stars on GitHub - 1 maintainer
RJMCMCNucleosomes 1.30.0
Bayesian hierarchical model for genome-wide nucleosome positioning with high-throughput short-rea...4 versions - Latest release: about 1 year ago - 11.2 thousand downloads total - 0 stars on GitHub - 1 maintainer
PLSDAbatch 1.6.0
PLSDA-batch4 versions - Latest release: 3 months ago - 5.5 thousand downloads total - 13 stars on GitHub - 1 maintainer
SAIGEgds 2.10.0
Scalable Implementation of Generalized mixed models using GDS files in Phenome-Wide Association S...9 versions - Latest release: 3 months ago - 14.7 thousand downloads total - 7 stars on GitHub - 1 maintainer
CatsCradle 1.4.2
This package provides methods for analysing spatial transcriptomics data and for discovering gene...5 versions - Latest release: 29 days ago - 4.24 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 4.9% on bioconductor.org
6 versions - Latest release: 3 months ago - 75.6 thousand downloads total - 1 maintainer
scde 2.38.0
Single Cell Differential Expression6 versions - Latest release: 3 months ago - 75.6 thousand downloads total - 1 maintainer
INDEED 2.24.0
Interactive Visualization of Integrated Differential Expression and Differential Network Analysis...6 versions - Latest release: 3 months ago - 10.7 thousand downloads total - 4 stars on GitHub - 2 maintainers
CTSV 1.12.0
Identification of cell-type-specific spatially variable genes accounting for excess zeros6 versions - Latest release: 3 months ago - 7.04 thousand downloads total - 2 stars on GitHub - 1 maintainer
switchBox 1.46.0
Utilities to train and validate classifiers based on pair switching using the K-Top-Scoring-Pair ...6 versions - Latest release: 3 months ago - 1 dependent package - 26.3 thousand downloads total - 3 maintainers
scoup 1.4.0
Simulate Codons with Darwinian Selection Modelled as an OU Process3 versions - Latest release: 3 months ago - 3.19 thousand downloads total - 0 stars on GitHub - 1 maintainer
FeatSeekR 1.10.0
FeatSeekR an R package for unsupervised feature selection6 versions - Latest release: 3 months ago - 5.95 thousand downloads total - 1 stars on GitHub - 1 maintainer
gsean 1.30.0
Gene Set Enrichment Analysis with Networks6 versions - Latest release: 3 months ago - 14.9 thousand downloads total - 1 maintainer
BANDITS 1.26.0
BANDITS: Bayesian ANalysis of DIfferenTial Splicing8 versions - Latest release: 3 months ago - 1 dependent package - 17 thousand downloads total - 19 stars on GitHub - 1 maintainer
BEclear 2.26.0
Correction of batch effects in DNA methylation data6 versions - Latest release: 3 months ago - 23.7 thousand downloads total - 5 stars on GitHub - 1 maintainer
MAI 1.16.0
Mechanism-Aware Imputation6 versions - Latest release: 3 months ago - 8.29 thousand downloads total - 2 stars on GitHub - 1 maintainer
STADyUM 1.0.2
Statistical Transcriptome Analysis under a Dynamic Unified Model2 versions - Latest release: 3 months ago - 1.07 thousand downloads total - 1 stars on GitHub - 1 maintainer
methInheritSim 1.32.0
Simulating Whole-Genome Inherited Bisulphite Sequencing Data6 versions - Latest release: 3 months ago - 1 dependent package - 15.2 thousand downloads total - 2 stars on GitHub - 1 maintainer
GPA 1.22.0
GPA (Genetic analysis incorporating Pleiotropy and Annotation)6 versions - Latest release: 3 months ago - 9.65 thousand downloads total - 16 stars on GitHub - 1 maintainer
zitools 1.4.0
Analysis of zero-inflated count data3 versions - Latest release: 3 months ago - 3.26 thousand downloads total - 0 stars on GitHub - 1 maintainer
garfield 1.38.0
GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction6 versions - Latest release: 3 months ago - 16.2 thousand downloads total - 1 maintainer
IsoBayes 1.2.7
IsoBayes: Single Isoform protein inference Method via Bayesian Analyses5 versions - Latest release: over 1 year ago - 2.24 thousand downloads total - 7 stars on GitHub - 1 maintainer
flowGraph 1.18.0
Identifying differential cell populations in flow cytometry data accounting for marker frequency6 versions - Latest release: 3 months ago - 8.92 thousand downloads total - 1 stars on GitHub - 1 maintainer
QUBIC 1.38.0
An R package for qualitative biclustering in support of gene co-expression analyses6 versions - Latest release: 3 months ago - 2 dependent packages - 33.5 thousand downloads total - 4 stars on GitHub - 1 maintainer
Top 4.7% on bioconductor.org
7 versions - Latest release: 3 months ago - 163 thousand downloads total - 646 stars on GitHub - 1 maintainer
infercnv 1.26.0
Infer Copy Number Variation from Single-Cell RNA-Seq Data7 versions - Latest release: 3 months ago - 163 thousand downloads total - 646 stars on GitHub - 1 maintainer
nucleoSim 1.38.0
Generate synthetic nucleosome maps6 versions - Latest release: 3 months ago - 1 dependent package - 17.1 thousand downloads total - 2 stars on GitHub - 1 maintainer
regionalpcs 1.8.0
Summarizing Regional Methylation with Regional Principal Components Analysis6 versions - Latest release: 29 days ago - 5.54 thousand downloads total - 3 stars on GitHub - 1 maintainer
discordant 1.34.0
The Discordant Method: A Novel Approach for Differential Correlation6 versions - Latest release: 3 months ago - 19.2 thousand downloads total - 10 stars on GitHub - 1 maintainer
VaSP 1.22.0
Quantification and Visualization of Variations of Splicing in Population6 versions - Latest release: 3 months ago - 9.49 thousand downloads total - 3 stars on GitHub - 1 maintainer
covEB 1.36.0
Empirical Bayes estimate of block diagonal covariance matrices6 versions - Latest release: 3 months ago - 16.2 thousand downloads total - 1 maintainer
GGPA 1.22.0
graph-GPA: A graphical model for prioritizing GWAS results and investigating pleiotropic architec...6 versions - Latest release: 3 months ago - 10.1 thousand downloads total - 1 stars on GitHub - 1 maintainer
spaSim 1.12.0
Spatial point data simulator for tissue images6 versions - Latest release: 3 months ago - 7.21 thousand downloads total - 2 stars on GitHub - 1 maintainer
tweeDEseq 1.56.0
RNA-seq data analysis using the Poisson-Tweedie family of distributions6 versions - Latest release: 3 months ago - 41.9 thousand downloads total - 0 stars on GitHub - 1 maintainer
RolDE 1.14.0
RolDE: Robust longitudinal Differential Expression6 versions - Latest release: 3 months ago - 7.55 thousand downloads total - 5 stars on GitHub - 1 maintainer
target 1.24.0
Predict Combined Function of Transcription Factors6 versions - Latest release: 3 months ago - 11.2 thousand downloads total - 5 stars on GitHub - 1 maintainer
selectKSigs 1.22.0
Selecting the number of mutational signatures using a perplexity-based measure and cross-validation6 versions - Latest release: 3 months ago - 9.7 thousand downloads total - 0 stars on GitHub - 1 maintainer
fgga 1.18.0
Hierarchical ensemble method based on factor graph7 versions - Latest release: 3 months ago - 8.9 thousand downloads total - 3 stars on GitHub - 1 maintainer
MPRAnalyze 1.28.0
Statistical Analysis of MPRA data6 versions - Latest release: 3 months ago - 13.3 thousand downloads total - 11 stars on GitHub - 1 maintainer
DESpace 2.2.2
DESpace: a framework to discover spatially variable genes and differential spatial patterns acros...8 versions - Latest release: 2 months ago - 7.95 thousand downloads total - 6 stars on GitHub - 1 maintainer
methylclock 1.16.0
Methylclock - DNA methylation-based clocks6 versions - Latest release: 3 months ago - 17.3 thousand downloads total - 46 stars on GitHub - 1 maintainer
methylInheritance 1.34.0
Permutation-Based Analysis associating Conserved Differentially Methylated Elements Across Multip...7 versions - Latest release: 3 months ago - 1 dependent package - 16.9 thousand downloads total - 0 stars on GitHub - 1 maintainer
distinct 1.22.0
distinct: a method for differential analyses via hierarchical permutation tests7 versions - Latest release: 3 months ago - 2 dependent packages - 18.3 thousand downloads total - 11 stars on GitHub - 1 maintainer
AWFisher 1.24.0
An R package for fast computing for adaptively weighted fisher's method6 versions - Latest release: 4 months ago - 14.1 thousand downloads total - 3 stars on GitHub - 1 maintainer
phenomis 1.12.0
Postprocessing and univariate analysis of omics data8 versions - Latest release: 3 months ago - 7.53 thousand downloads total - 1 maintainer
MethylMix 2.40.0
MethylMix: Identifying methylation driven cancer genes6 versions - Latest release: 3 months ago - 30.5 thousand downloads total - 1 maintainer
IntramiRExploreR 1.32.0
Predicting Targets for Drosophila Intragenic miRNAs6 versions - Latest release: 3 months ago - 13.7 thousand downloads total - 0 stars on GitHub - 1 maintainer
ClusterJudge 1.32.0
Judging Quality of Clustering Methods using Mutual Information6 versions - Latest release: 3 months ago - 14.8 thousand downloads total - 1 maintainer
dcGSA 1.38.0
Distance-correlation based Gene Set Analysis for longitudinal gene expression profiles6 versions - Latest release: 3 months ago - 16.6 thousand downloads total - 1 maintainer
omicRexposome 1.32.0
Exposome and omic data associatin and integration analysis7 versions - Latest release: 4 months ago - 15.2 thousand downloads total - 1 maintainer
POMA 1.20.0
Tools for Omics Data Analysis6 versions - Latest release: 3 months ago - 1 dependent package - 15.1 thousand downloads total - 12 stars on GitHub - 1 maintainer
rqt 1.36.0
rqt: utilities for gene-level meta-analysis6 versions - Latest release: 3 months ago - 14.1 thousand downloads total - 2 stars on GitHub - 1 maintainer
MultiBaC 1.20.0
Multiomic Batch effect Correction6 versions - Latest release: 3 months ago - 12.3 thousand downloads total - 1 maintainer
kmcut 1.4.0
Optimized Kaplan Meier analysis and identification and validation of prognostic biomarkers3 versions - Latest release: 3 months ago - 3.36 thousand downloads total - 1 maintainer
Top 7.6% on bioconductor.org
6 versions - Latest release: 4 months ago - 40.4 thousand downloads total - 1 maintainer
Mulcom 1.60.0
Calculates Mulcom test6 versions - Latest release: 4 months ago - 40.4 thousand downloads total - 1 maintainer
PAIRADISE 1.26.0
PAIRADISE: Paired analysis of differential isoform expression7 versions - Latest release: 3 months ago - 14.3 thousand downloads total - 2 maintainers
RUVnormalize 1.44.0
RUV for normalization of expression array data6 versions - Latest release: 3 months ago - 24.1 thousand downloads total - 1 maintainer
XAItest 1.2.0
XAItest: Enhancing Feature Discovery with eXplainable AI4 versions - Latest release: 3 months ago - 2.37 thousand downloads total - 1 stars on GitHub - 1 maintainer
Harman 1.38.0
The removal of batch effects from datasets using a PCA and constrained optimisation based technique6 versions - Latest release: 3 months ago - 1 dependent package - 30.3 thousand downloads total - 1 maintainer
AMARETTO 1.26.0
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis an...6 versions - Latest release: 4 months ago - 16.9 thousand downloads total - 1 maintainer
CytoDx 1.30.0
Robust prediction of clinical outcomes using cytometry data without cell gating6 versions - Latest release: 3 months ago - 14.7 thousand downloads total - 1 maintainer
survtype 1.26.0
Subtype Identification with Survival Data6 versions - Latest release: 3 months ago - 11.2 thousand downloads total - 1 maintainer
BiocSklearn 1.32.0
interface to python sklearn via Rstudio reticulate7 versions - Latest release: 3 months ago - 24.1 thousand downloads total - 1 maintainer
Top 3.1% on bioconductor.org
6 versions - Latest release: 3 months ago - 4 dependent packages - 126 thousand downloads total - 1 maintainer
RankProd 3.36.0
Rank Product method for identifying differentially expressed genes with application in meta-analysis6 versions - Latest release: 3 months ago - 4 dependent packages - 126 thousand downloads total - 1 maintainer
randRotation 1.22.0
Random Rotation Methods for High Dimensional Data with Batch Structure6 versions - Latest release: 3 months ago - 9.08 thousand downloads total - 0 stars on GitHub - 1 maintainer
waddR 1.24.0
Statistical tests for detecting differential distributions based on the 2-Wasserstein distance6 versions - Latest release: 3 months ago - 10.9 thousand downloads total - 27 stars on GitHub - 1 maintainer
Top 5.8% on bioconductor.org
6 versions - Latest release: 3 months ago - 3 dependent packages - 59.1 thousand downloads total - 1 maintainer
fabia 2.56.0
FABIA: Factor Analysis for Bicluster Acquisition6 versions - Latest release: 3 months ago - 3 dependent packages - 59.1 thousand downloads total - 1 maintainer
signeR 2.12.0
Empirical Bayesian approach to mutational signature discovery6 versions - Latest release: 3 months ago - 21.9 thousand downloads total - 13 stars on GitHub - 1 maintainer
GSAR 1.44.0
Gene Set Analysis in R6 versions - Latest release: 3 months ago - 31.6 thousand downloads total - 2 maintainers
Lheuristic 1.2.0
Detection of scatterplots with L-shaped pattern2 versions - Latest release: 3 months ago - 2.13 thousand downloads total - 0 stars on GitHub - 1 maintainer
synergyfinder 3.18.0
Calculate and Visualize Synergy Scores for Drug Combinations7 versions - Latest release: 3 months ago - 35.3 thousand downloads total - 1 maintainer
srnadiff 1.30.0
Finding differentially expressed unannotated genomic regions from RNA-seq data7 versions - Latest release: 3 months ago - 13.3 thousand downloads total - 1 maintainer
ROCpAI 1.22.0
Receiver Operating Characteristic Partial Area Indexes for evaluating classifiers6 versions - Latest release: 3 months ago - 9.37 thousand downloads total - 0 stars on GitHub - 1 maintainer
profileScoreDist 1.38.0
Profile score distributions6 versions - Latest release: 3 months ago - 15.1 thousand downloads total - 1 maintainer
PPInfer 1.36.0
Inferring functionally related proteins using protein interaction networks6 versions - Latest release: 3 months ago - 1 dependent package - 20.3 thousand downloads total - 1 maintainer
Top 3.2% on bioconductor.org
8 versions - Latest release: 4 months ago - 11 dependent packages - 267 thousand downloads total - 108 stars on GitHub - 1 maintainer
SNPRelate 1.44.0
Parallel Computing Toolset for Relatedness and Principal Component Analysis of SNP Data8 versions - Latest release: 4 months ago - 11 dependent packages - 267 thousand downloads total - 108 stars on GitHub - 1 maintainer
stageR 1.32.0
stageR: stage-wise analysis of high throughput gene expression data in R7 versions - Latest release: 3 months ago - 2 dependent packages - 33.3 thousand downloads total - 1 maintainer
Top 3.6% on bioconductor.org
6 versions - Latest release: 3 months ago - 3 dependent packages - 211 thousand downloads total - 141 stars on GitHub - 1 maintainer
ballgown 2.42.0
Flexible, isoform-level differential expression analysis6 versions - Latest release: 3 months ago - 3 dependent packages - 211 thousand downloads total - 141 stars on GitHub - 1 maintainer
pageRank 1.20.0
Temporal and Multiplex PageRank for Gene Regulatory Network Analysis6 versions - Latest release: 3 months ago - 9.07 thousand downloads total - 0 stars on GitHub - 1 maintainer
Related Keywords
Software
183
GeneExpression
60
DifferentialExpression
46
Sequencing
44
ImmunoOncology
36
RNASeq
33
Clustering
30
Visualization
27
Regression
24
Genetics
23
MultipleComparison
23
SingleCell
22
Classification
22
Preprocessing
19
Microarray
18
Bayesian
17
Network
17
Transcriptomics
17
BatchEffect
15
BiologicalQuestion
15
Transcription
14
PrincipalComponent
14
DimensionReduction
13
GraphAndNetwork
13
Normalization
13
FlowCytometry
11
GenomeWideAssociation
11
Pathways
11
GeneSetEnrichment
10
DNAMethylation
10
r
9
FeatureExtraction
8
Proteomics
8
MassSpectrometry
8
DataImport
8
Spatial
8
CellBasedAssays
7
bioconductor
7
CellBiology
7
Coverage
7
SNP
7
DifferentialMethylation
7
AlternativeSplicing
7
GenomicVariation
7
Survival
6
NetworkEnrichment
6
bioinformatics
6
QualityControl
6
Metabolomics
6
WholeGenome
6
GeneRegulation
6
SomaticMutation
6
DifferentialSplicing
6
Epigenetics
5
SystemsBiology
5
GeneTarget
5
TimeCourse
5
bioconductor-package
5
BiomedicalInformatics
5
MethylationArray
5
ResearchField
5
Technology
5
KEGG
4
Microbiome
4
WorkflowStep
4
ExperimentalDesign
4
DNASeq
4
r-package
4
Infrastructure
4
HiddenMarkovModel
4
FunctionalGenomics
3
Annotation
3
NetworkInference
3
GenomeAnnotation
3
CopyNumberVariation
3
MethylSeq
3
rstats
3
Lipidomics
2
snp
2
ExomeSeq
2
machine-learning
2
missing-data
2
inheritance
2
simulation
2
FunctionalPrediction
2
bioconductor-packages
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mRNAMicroarray
2
MicroRNAArray
2
statistics
2
DataRepresentation
2
GenePrediction
2
GO
2
nucleosomes
2
methylation
2
dna-methylation
2
Alignment
2
MathematicalBiology
2
ChIPSeq
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spatially-resolve
1
BiocViews
1