Bioconductor Packages

Microarray QA and statistical data analysis for Applied Biosystems Genome Survey Microrarray (AB1700) gene expression data.

Absolute Copy Number Estimation from Low-coverage Whole Genome Sequencing

Algorithms for Calculating Microarray Enrichment (ACME)

ADAM: Activity and Diversity Analysis Module

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

MassBank Annotation Resources for AnnotationHub

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

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)

Attribute-Weighted Aggregation

visualization and annotation of isotopic enrichment patterns of peptides and metabolites with stable isotope labeling from proteomics and metabolomics

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

Processing and Differential Expression Analysis of Agilent microRNA chips

Investigates Allele Specific Expression

Statistical analysis of sequins

Manipulation of SQLite-based annotations in Bioconductor

Access the ArrayExpress Collection at EMBL-EBI Biostudies and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet

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

BEAT - BS-Seq Epimutation Analysis Toolkit

BLMA: A package for bi-level meta-analysis

Model higher-order methylation profiles

Baffling Recursive Algorithm for Isotope distributioN calculations

Forge your own BSgenome data package

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

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

Spatial transcriptomic clustering

R SDK for BaseSpace RESTful API

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