bioconductor.org "NetworkEnrichment" keyword
MSstatsBioNet 1.4.1
Network Analysis for MS-based Proteomics Experiments4 versions - Latest release: 4 months ago - 10.1 thousand downloads total - 2 stars on GitHub - 1 maintainer
PathNet 1.52.0
An R package for pathway analysis using topological information7 versions - Latest release: 5 months ago - 38.4 thousand downloads total - 1 maintainer
cageminer 1.18.0
Candidate Gene Miner8 versions - Latest release: 5 months ago - 19.6 thousand downloads total - 1 stars on GitHub - 1 maintainer
goatea 2.0.0
Interactive Exploration of GSEA by the GOAT Method3 versions - Latest release: 5 months ago - 4.24 thousand downloads total - 5 stars on GitHub - 1 maintainer
SMITE 1.40.0
Significance-based Modules Integrating the Transcriptome and Epigenome7 versions - Latest release: 5 months ago - 26.2 thousand downloads total - 1 stars on GitHub - 2 maintainers
DNEA 1.2.0
Differential Network Enrichment Analysis for Biological Data2 versions - Latest release: 5 months ago - 5.86 thousand downloads total - 3 stars on GitHub - 1 maintainer
scGraphVerse 1.2.0
scGraphVerse: A Gene Network Analysis Package2 versions - Latest release: 5 months ago - 5.78 thousand downloads total - 1 stars on GitHub - 1 maintainer
pathlinkR 1.8.0
Analyze and interpret RNA-Seq results6 versions - Latest release: 6 months ago - 11.2 thousand downloads total - 33 stars on GitHub - 1 maintainer
Top 6.7% on bioconductor.org
7 versions - Latest release: 5 months ago - 7 dependent packages - 120 thousand downloads total - 1 maintainer
viper 1.46.0
Virtual Inference of Protein-activity by Enriched Regulon analysis7 versions - Latest release: 5 months ago - 7 dependent packages - 120 thousand downloads total - 1 maintainer
EGAD 1.40.0
Extending guilt by association by degree7 versions - Latest release: 5 months ago - 26.2 thousand downloads total - 1 maintainer
omicsViewer 1.16.0
Interactive and explorative visualization of SummarizedExperssionSet or ExpressionSet using omics...7 versions - Latest release: 6 months ago - 19.5 thousand downloads total - 4 stars on GitHub - 1 maintainer
fedup 1.19.0
Fisher's Test for Enrichment and Depletion of User-Defined Pathways7 versions - Latest release: 5 months ago - 13.1 thousand downloads total - 8 stars on GitHub - 1 maintainer
MoonlightR 1.38.0
Identify oncogenes and tumor suppressor genes from omics data7 versions - Latest release: 4 months ago - 26.3 thousand downloads total - 17 stars on GitHub - 1 maintainer
GSEABenchmarkeR 1.32.0
Reproducible GSEA Benchmarking8 versions - Latest release: 5 months ago - 2 dependent packages - 24.6 thousand downloads total - 14 stars on GitHub - 1 maintainer
toppgene 1.0.2
Gene List Enrichment Analysis using the ToppGene Suite3 versions - Latest release: 2 months ago - 2.06 thousand downloads total - 1 stars on GitHub - 1 maintainer
CBNplot 1.12.0
plot bayesian network inferred from gene expression data based on enrichment analysis results9 versions - Latest release: 5 months ago - 14.7 thousand downloads total - 68 stars on GitHub - 1 maintainer
Top 7.7% on bioconductor.org
7 versions - Latest release: 5 months ago - 56.6 thousand downloads total - 2 maintainers
GDCRNATools 1.32.0
GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, mRNA, and miRNA data i...7 versions - Latest release: 5 months ago - 56.6 thousand downloads total - 2 maintainers
DeMAND 1.42.0
DeMAND7 versions - Latest release: 5 months ago - 22.2 thousand downloads total - 2 maintainers
RTNsurvival 1.36.0
Survival analysis using transcriptional networks inferred by the RTN package8 versions - Latest release: 5 months ago - 20.3 thousand downloads total - 2 maintainers
signatureSearch 1.26.0
Environment for Gene Expression Searching Combined with Functional Enrichment Analysis7 versions - Latest release: 5 months ago - 26.7 thousand downloads total - 24 stars on GitHub - 1 maintainer
MIRit 1.8.0
Integrate microRNA and gene expression to decipher pathway complexity10 versions - Latest release: 5 months ago - 11.2 thousand downloads total - 2 stars on GitHub - 1 maintainer
Moonlight2R 1.10.1
Identify oncogenes and tumor suppressor genes from omics data9 versions - Latest release: 3 months ago - 12.2 thousand downloads total - 5 stars on GitHub - 1 maintainer
magrene 1.14.0
Motif Analysis In Gene Regulatory Networks7 versions - Latest release: 5 months ago - 11.8 thousand downloads total - 3 stars on GitHub - 1 maintainer
Top 9.7% on bioconductor.org
7 versions - Latest release: 5 months ago - 1 dependent package - 37 thousand downloads total - 1 maintainer
DEGraph 1.64.0
Two-sample tests on a graph7 versions - Latest release: 5 months ago - 1 dependent package - 37 thousand downloads total - 1 maintainer
vissE 1.20.0
Visualising Set Enrichment Analysis Results7 versions - Latest release: 5 months ago - 17.4 thousand downloads total - 19 stars on GitHub - 1 maintainer
SGCP 1.11.1
SGCP: A semi-supervised pipeline for gene clustering using self-training approach in gene co-expr...10 versions - Latest release: 5 months ago - 9.65 thousand downloads total - 2 stars on GitHub - 1 maintainer
RITAN 1.36.0
Rapid Integration of Term Annotation and Network resources7 versions - Latest release: 5 months ago - 21.3 thousand downloads total - 1 maintainer
Top 9.8% on bioconductor.org
7 versions - Latest release: 5 months ago - 1 dependent package - 40.2 thousand downloads total - 1 maintainer
FGNet 3.46.0
Functional Gene Networks derived from biological enrichment analyses7 versions - Latest release: 5 months ago - 1 dependent package - 40.2 thousand downloads total - 1 maintainer
enrichViewNet 1.10.0
From functional enrichment results to biological networks8 versions - Latest release: 4 months ago - 10.9 thousand downloads total - 6 stars on GitHub - 1 maintainer
vulcan 1.34.0
VirtUaL ChIP-Seq data Analysis using Networks7 versions - Latest release: 5 months ago - 19.4 thousand downloads total - 1 maintainer
PPInfer 1.38.0
Inferring functionally related proteins using protein interaction networks7 versions - Latest release: 5 months ago - 1 dependent package - 30.7 thousand downloads total - 1 maintainer
DEsubs 1.38.0
DEsubs: an R package for flexible identification of differentially expressed subpathways using RN...7 versions - Latest release: 5 months ago - 32.6 thousand downloads total - 2 maintainers
Top 6.1% on bioconductor.org
8 versions - Latest release: 4 months ago - 5 dependent packages - 94.6 thousand downloads total - 19 stars on GitHub - 1 maintainer
EnrichmentBrowser 2.42.0
Seamless navigation through combined results of set-based and network-based enrichment analysis8 versions - Latest release: 4 months ago - 5 dependent packages - 94.6 thousand downloads total - 19 stars on GitHub - 1 maintainer
diggit 1.44.0
Inference of Genetic Variants Driving Cellular Phenotypes7 versions - Latest release: 4 months ago - 30.1 thousand downloads total - 1 maintainer
MOMA 1.24.0
Multi Omic Master Regulator Analysis7 versions - Latest release: 5 months ago - 23.7 thousand downloads total - 5 stars on GitHub - 1 maintainer
BioCor 1.36.0
Functional Similarities7 versions - Latest release: 5 months ago - 33.5 thousand downloads total - 14 stars on GitHub - 1 maintainer
Top 9.0% on bioconductor.org
8 versions - Latest release: 5 months ago - 3 dependent packages - 52.9 thousand downloads total - 1 maintainer
RTN 2.36.0
RTN: Reconstruction of Transcriptional regulatory Networks and analysis of regulons8 versions - Latest release: 5 months ago - 3 dependent packages - 52.9 thousand downloads total - 1 maintainer
Top 5.3% on bioconductor.org
10 versions - Latest release: about 2 months ago - 4 dependent packages - 79.8 thousand downloads total - 1 maintainer
RedeR 3.8.1
Interactive visualization and manipulation of nested networks10 versions - Latest release: about 2 months ago - 4 dependent packages - 79.8 thousand downloads total - 1 maintainer
pareg 1.12.0 removed
Pathway enrichment using a regularized regression approach5 versions - Latest release: over 1 year ago - 4.25 thousand downloads total - 8 stars on GitHub - 1 maintainer
paxtoolsr 1.42.0 removed
Access Pathways from Multiple Databases Through BioPAX and Pathway Commons5 versions - Latest release: over 1 year ago - 27.7 thousand downloads total - 10 stars on GitHub - 1 maintainer
CEMiTool 1.36.0
Co-expression Modules identification Tool9 versions - Latest release: 5 months ago - 52.7 thousand downloads total - 1 maintainer
RTNduals 1.36.0
Analysis of co-regulation and inference of 'dual regulons'8 versions - Latest release: 5 months ago - 1 dependent package - 27.6 thousand downloads total - 2 maintainers
miRspongeR 2.16.2
Identification and analysis of miRNA sponge regulation10 versions - Latest release: 24 days ago - 1 dependent package - 22.5 thousand downloads total - 5 stars on GitHub - 1 maintainer
RegEnrich 1.22.1
Gene regulator enrichment analysis10 versions - Latest release: 4 months ago - 23 thousand downloads total - 1 maintainer
GWENA 1.22.0
Pipeline for augmented co-expression analysis7 versions - Latest release: 5 months ago - 27.1 thousand downloads total - 18 stars on GitHub - 1 maintainer
dce 1.13.0 removed
Pathway Enrichment Based on Differential Causal Effects4 versions - Latest release: almost 2 years ago - 6.79 thousand downloads total - 14 stars on GitHub - 1 maintainer
CTDquerier 2.20.0
Package for CTDbase data query, visualization and downstream analysis7 versions - Latest release: 5 months ago - 25.4 thousand downloads total - 1 maintainer
splineTimeR 1.40.0
Time-course differential gene expression data analysis using spline regression models followed by...7 versions - Latest release: 5 months ago - 30 thousand downloads total - 2 maintainers
FELLA 1.32.0
Interpretation and enrichment for metabolomics data7 versions - Latest release: 5 months ago - 36.3 thousand downloads total - 1 maintainer
ibh 1.60.0
Interaction Based Homogeneity for Evaluating Gene Lists7 versions - Latest release: 5 months ago - 36.7 thousand downloads total - 1 maintainer
gsean 1.32.0
Gene Set Enrichment Analysis with Networks7 versions - Latest release: 5 months ago - 24.2 thousand downloads total - 1 maintainer
Top 6.0% on bioconductor.org
7 versions - Latest release: 5 months ago - 3 dependent packages - 99.2 thousand downloads total - 1 maintainer
BioNet 1.72.0
Routines for the functional analysis of biological networks7 versions - Latest release: 5 months ago - 3 dependent packages - 99.2 thousand downloads total - 1 maintainer
Top 9.8% on bioconductor.org
8 versions - Latest release: 5 months ago - 1 dependent package - 52.9 thousand downloads total - 1 maintainer
EGSEA 1.40.0
Ensemble of Gene Set Enrichment Analyses8 versions - Latest release: 5 months ago - 1 dependent package - 52.9 thousand downloads total - 1 maintainer
SANTA 2.48.0
Spatial Analysis of Network Associations7 versions - Latest release: 5 months ago - 36.2 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 7.5% on bioconductor.org
7 versions - Latest release: 5 months ago - 44.9 thousand downloads total - 1 maintainer
miRNApath 1.72.0
miRNApath: Pathway Enrichment for miRNA Expression Data7 versions - Latest release: 5 months ago - 44.9 thousand downloads total - 1 maintainer
CoRegNet 1.42.0 removed
CoRegNet : reconstruction and integrated analysis of co-regulatory networks3 versions - Latest release: over 2 years ago - 17.4 thousand downloads total - 1 maintainer
fcoex 1.16.0 removed
FCBF-based Co-Expression Networks for Single Cells2 versions - Latest release: almost 3 years ago - 5.4 thousand downloads total - 1 maintainer
netboxr 1.11.0 removed
netboxr1 version - Latest release: about 3 years ago - 2.92 thousand downloads total - 1 maintainer
Related Keywords
Software
58
Network
47
GeneExpression
32
GraphAndNetwork
28
GeneSetEnrichment
27
Pathways
25
DifferentialExpression
22
SystemsBiology
17
RNASeq
14
NetworkInference
13
GeneRegulation
11
Visualization
11
KEGG
10
ImmunoOncology
9
Clustering
8
GO
8
FunctionalGenomics
7
Microarray
7
Transcriptomics
6
StatisticalMethod
6
FunctionalPrediction
5
Survival
5
bioinformatics
5
Reactome
5
Sequencing
5
DataImport
4
Proteomics
4
mRNAMicroarray
4
Transcription
3
GeneTarget
3
QualityControl
3
network
3
MotifDiscovery
3
DifferentialMethylation
3
SingleCell
3
Regression
3
Metabolomics
3
Genetics
3
r
2
DNAMethylation
2
MethylationArray
2
network-analysis
2
ReportWriting
2
Coverage
2
Classification
2
MultipleComparison
2
mirna
2
visualization
2
Annotation
2
gene
2
networks
2
pathways
2
GUI
2
TwoChannel
2
BiomedicalInformatics
2
bioconductor
2
pathway-enrichment-analysis
1
r-package
1
functional-enrichment
1
cystocape
1
BiologicalQuestion
1
transcriptomics
1
pipeline
1
DataRepresentation
1
enrichment-analysis
1
co-expression
1
MassSpectrometry
1
GeneticVariability
1
DecisionTree
1
GenePrediction
1
rstudio
1
similarity-measurement
1
similarity
1
pathway-analysis
1
gene-sets
1
functional-similarity
1
bioconductor-packages
1
sponge
1
cerna
1
Spatial
1
unsupervised-learning
1
semi-supervised-learning
1
self-training
1
networkclustering
1
graphs
1
genecoexpressionnetwork
1
clustering
1
NeuralNetwork
1
DimensionReduction
1
proteomics
1
GenomeWideAssociation
1
metabolomics
1
Lipidomics
1
ChIPSeq
1
SNP
1
VariantAnnotation
1
Pharmacogenetics
1
ThirdPartyClient
1
rstats
1
network-science
1