Bioconductor Packages

ABSSeq: a new RNA-Seq analysis method based on modelling absolute expression differences

Absolute Copy Number Estimation from Low-coverage Whole Genome Sequencing

ADAM: Activity and Diversity Analysis Module

Activity and Diversity Analysis Module Graphical User Interface

Analysis of Microbiome Differential Abundance by Pooling Tobit Models

Analysis Of Differential Abundance Taking Sample and Scale Variation Into Account

Active modules for multilayer weighted gene co-expression networks: a continuous optimization approach

Microbiome differential abudance and correlation analyses with bias correction

A toolkit for APA analysis using RNA-seq data

Ancestry Specific Allele Frequency Estimation

An R package for subset-based association analysis of heterogeneous traits and subtypes

Functional annotation-driven unsupervised clustering for single-cell data

Analysis of Alternative Splicing Using RNA-Seq

ATAC-seq Quality Control

Transcription Factor Enrichment Analysis for ATAC-seq

AUCell: Analysis of 'gene set' activity in single-cell RNA-seq data (e.g. identify cells with specific gene signatures)

A Functional Approach To Impute Genetically Regulated Expression

Processing and Differential Expression Analysis of Agilent microRNA chips

Accessing AlphaMissense Data Resources in R

Statistical analysis of sequins

Manipulation of SQLite-based annotations in Bioconductor

Assess Gene Predictions Using Proteomics and Evolutionary Conservation

Bayesian Analysis of Differential Expression in RNA Sequencing Data

BANDITS: Bayesian ANalysis of DIfferenTial Splicing

Bayesian Analysis of Single-Cell Sequencing data

Stan implementation of BASiCS

BBCAnalyzer: an R/Bioconductor package for visualizing base counts

Predicting binding site consensus from ranked DNA sequences

Performs Bayesian GWAS analysis for non-Gaussian data using BG2

BLMA: A package for bi-level meta-analysis

Model higher-order methylation profiles

R package associated to BREW3R

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

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

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

Basic peak calling on STARR-seq data

Batch Effects Quality Control Software

BayesKnockdown: Posterior Probabilities for Edges from Knockdown Data

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

Bias-free Footprint Enrichment Test

Binding site defintion based on iCLIP data

Functional Similarities

Biological Network Reconstruction Omnibus

Routines for the functional analysis of biological networks

Detect tissue heterogeneity in expression profiles with gene sets

View AnnotationHub and ExperimentHub Resources Interactively

View Bioconductor Package Maintainer Information Interactively

Efficient manipulation of biological strings