Bioconductor Packages

High-performing routines for the randomization of a bipartite graph (or a binary event matrix), undirected and directed signed graph preserving degree distribution (or marginal totals)

Binding site defintion based on iCLIP data

BioCarta Pathway Images

Functional Similarities

Bioinformatics Genetic Algorithm (BioGA)

BioMM: Biological-informed Multi-stage Machine learning framework for phenotype prediction using omics data

Model-View-Controller (MVC) Classes That Use Biobase

Generating Various Molecular Representations for Chemicals, Proteins, DNAs/RNAs and Their Interactions

Biological Network Analysis in R

Biological Network Reconstruction Omnibus

Routines for the functional analysis of biological networks

Biological Network Analysis

R-side access to BioPlex protein-protein interaction data

Detect tissue heterogeneity in expression profiles with gene sets

Write, containerize, publish and version Quarto books with Bioconductor

An interactive Shiny dashboard for Bioconductor package maintainers

Representing Different Biological Sets

Tools to aid the development of Bioconductor Workflow packages

Efficient manipulation of biological strings

Transcript expression inference and differential expression analysis for RNA-seq data

"Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oleś M, Lu J et al. - experimental data and complete analysis

This R package for performing module repertoire analyses and generating fingerprint representations

Brain Span Atlas in Biobase Expressionset R toolset

Cohort-aware methods for intrinsic molecular subtyping of breast cancer

Code for using BridgeDb identifier mapping framework from within R

BrowserViz: interactive R/browser graphics using websockets and JSON

BrowserVizDemo: How to subclass BrowserViz

Infer Ligand-Receptor Interactions from bulk expression (transcriptomics/proteomics) data, or spatial transcriptomics

Category encoding method for selecting feature genes for the classification of single-cell RNA-seq

Chromosmal Aberrations Finder in Expression data

Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor

Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining

CAncer bioMarker Prediction Pipeline 2 (CAMPP2)

Spatially Informed Cell Type Deconvolution for Spatial Transcriptomics

A CAusal Reasoning tool for Network Identification (from gene expression data) using Integer VALue programming

Cytometry dATa anALYSis Tools

Cancer Specific Transcriptomic Signature (CATS)

Competitive Balances for Taxonomic Enrichment Analysis in R

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

Case Control Allele Frequency Estimation

Plots For Visualising Cell-Cell Interactions

Carbon Tetrachloride (CCl4) treated hepatocytes

Clustering Deviation Index (CDI)

Co-expression Modules identification Tool

A Bioconductor package to predict cell-type specific enhancer target interactions

Hub package for the precomputed data of CENTRE and example data

An R package for analysis of case-control studies in genetic epidemiology

Normalization of array CGH data with imbalanced aberrations.

Dimension Reduction for Array CGH Data with Minimal Information Loss.