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

Adaptive Dropout Imputer (ADImpute)

Analysis of Big Data from aCGH Experiments using Parallel Computing and ff Objects

Agreement of Differential Expression Analysis

AIMS : Absolute Assignment of Breast Cancer Intrinsic Molecular Subtype

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

Association Plots

Adaptive Robust Regression normalization for Illumina methylation data

Ancestry Specific Allele Frequency Estimation

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

Adaptive Signature Selection and InteGratioN (ASSIGN)

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

Analyze and correct probe positional bias in microarray data due to RNA degradation

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

BEAT - BS-Seq Epimutation Analysis Toolkit

Correction of batch effects in DNA methylation data

Performs Bayesian GWAS analysis for non-Gaussian data using BG2

BLMA: A package for bi-level meta-analysis

Refitting diploid region profiles using a clustering procedure

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

Batch Effects Correction with Unknown Subtypes

Batch Effect Correction with Unknow Subtypes for scRNA-seq data

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

Spatial transcriptomic clustering