Bioconductor Topics

ADAM: Activity and Diversity Analysis Module

Activity and Diversity Analysis Module Graphical User Interface

Adaptive Signature Selection and InteGratioN (ASSIGN)

BLMA: A package for bi-level meta-analysis

Model higher-order methylation profiles

Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology

BioCarta Pathway Images

Functional Similarities

Representing Different Biological Sets

CBN2Path: an R/Bioconductor package for the analysis of cancer progression pathways using Conjunctive Bayesian Networks

plot bayesian network inferred from gene expression data based on enrichment analysis results

Co-expression Modules identification Tool

CHRONOS: A time-varying method for microRNA-mediated sub-pathway enrichment analysis

Package for CTDbase data query, visualization and downstream analysis

Category Analysis

Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data

Analysis of single-cell epigenomics datasets with a Shiny App

Judging Quality of Clustering Methods using Mutual Information

Tools for the Differential Analysis of Proteins Abundance with R

Denoising Algorithm based on Relevance network Topology

DEsubs: an R package for flexible identification of differentially expressed subpathways using RNA-seq expression experiments

Disease Ontology Semantic and Enrichment analysis

DeeDeeExperiment: An S4 Class for managing and exploring omics analysis results

Ensemble of Gene Set Enrichment Analyses

Uses Brown's method to combine p-values from dependent tests

Seamless navigation through combined results of set-based and network-based enrichment analysis

Interpretation and enrichment for metabolomics data

Functional Gene Networks derived from biological enrichment analyses

GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, mRNA, and miRNA data in GDC

GO-terms Semantic Similarity Measures

Gene Ontology enrichment analysis of gene pairs

Visualise microarray and RNAseq data using gene ontology annotations

Sunburst Plot for Enriched Gene Ontology Terms

Gene ontology enrichment using FUNC

Find the most characteristic gene ontology terms for groups of human genes

Tools for manipulating GO and microarrays

Gene set enrichment data structures and methods

Reproducible GSEA Benchmarking

Gene Set Regulation (GS-Reg)

Gene Set Variation Analysis for Microarray and RNA-Seq Data

Pipeline for augmented co-expression analysis

Defining and visualizing the distances between different genesets

Enjoy Analyzing And Integrating The Results From Differential Expression Analysis And Functional Enrichment Analysis

Interpretation of RNA-seq experiments through robust, efficient comparison to public databases

Global test for groups of variables via model comparisons

InterCellar: an R-Shiny app for interactive analysis and exploration of cell-cell communication in single-cell transcriptomics

Client-side REST access to the Kyoto Encyclopedia of Genes and Genomes (KEGG)

KEGGgraph: A graph approach to KEGG PATHWAY in R and Bioconductor

KnowSeq R/Bioc package: The Smart Transcriptomic Pipeline

LiquidAssociation