Bioconductor Packages

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

BEARscc (Bayesian ERCC Assesstment of Robustness of Single Cell Clusters)

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

Performs Bayesian GWAS analysis for non-Gaussian data using BG2

Bayesian models for differential gene expression

Bayesian Hierarchical Clustering

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

Computational pipeline for computing probability of modification from structure probing experiment data

Gene network reconstruction

Batch Effects Correction with Unknown Subtypes

kallisto | bustools R utilities

Batch Effect Correction with Unknow Subtypes for scRNA-seq data

BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes

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

Bioconductor-Friendly Multithreaded BAM Processing

Spatial transcriptomic clustering

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

Clustering and Resolution Enhancement of Spatial Transcriptomes

Comprehensive Collection of Curated Benchmarking Datasets and their Evaluation

Coordinate-Based Genomic Visualization Package for R

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)

Biclustering Analysis and Results Exploration

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

Classification for Biological Sequences

Write, containerize, publish and version Quarto books with Bioconductor

BioC Workflow about publishing a Bioc Workflow

Nearest Neighbor Detection for Bioconductor Packages

An interactive Shiny dashboard for Bioconductor package maintainers

Representing Different Biological Sets

Singular Value Decomposition for Bioconductor Packages