Bioconductor Packages

Bayesian Analysis of Single-Cell Sequencing data

Stan implementation of BASiCS

BBCAnalyzer: an R/Bioconductor package for visualizing base counts

Meta-analysis for the metagenomic read counts data from different cohorts

High Performance Data Integration for Large-Scale Analyses of Incomplete Omic Profiles Using Batch-Effect Reduction Trees (BERT)

Correction of batch effects in DNA methylation data

Bayesian models for differential gene expression

BLMA: A package for bi-level meta-analysis

Refitting diploid region profiles using a clustering procedure

Model higher-order methylation profiles

Tools for the Efficient Analysis of High-Resolution Genomics Data

Software infrastructure for efficient representation of full genomes and their SNPs

Forge your own BSgenome data package

Gene network reconstruction

Batch Effects Correction with Unknown Subtypes

kallisto | bustools R utilities

Batch Effect Correction with Unknow Subtypes for scRNA-seq data

BadRegionFinder: an R/Bioconductor package for identifying regions with bad coverage

Bioconductor-Friendly Multithreaded BAM Processing

Basic4Cseq: an R/Bioconductor package for analyzing 4C-seq data

Single-cell RNA-seq batch effects correction methods interface

Batch Effects Quality Control Software

Identify Batch-Biased Spatially Variable Genes

BayesKnockdown: Posterior Probabilities for Edges from Knockdown Data

Analysing Illumina BeadArray expression data using Bioconductor

Illumina EPIC data on BeadSorted child saliva cells

Comprehensive Collection of Curated Benchmarking Datasets and their Evaluation

Coordinate-Based Genomic Visualization Package for R

Datasets and test data files for the BentoBox package

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

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)

BioCarta Pathway Images

Functional Similarities

Bioinformatics Genetic Algorithm (BioGA)

Bio- and biomedical imaging dataset for machine learning and deep learning (for ExperimentHub)

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

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

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

Brain Span Atlas in Biobase Expressionset R toolset