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

Activity and Diversity Analysis Module Graphical User Interface

Analysis of Microbiome Differential Abundance by Pooling Tobit Models

Adaptive Dropout Imputer (ADImpute)

AnaLysis routines for ePigenomicS data

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

Microbiome differential abudance and correlation analyses with bias correction

Affinity Network Fusion for Complex Patient Clustering

Analysis of alternative poly A site usage

A toolkit for APA analysis using RNA-seq data

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)

ASpedia-FI: Functional Interaction Analysis of Alternative Splicing Events

Analysis of Alternative Splicing Using RNA-Seq

ATAC-seq Quality Control

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

Affymetrix Quality Assessment and Analysis Tool

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

Automated spectraL Processing System for NMR

A framework for sharing interactive data and plots from R through the web

Statistical analysis of sequins

Manipulation of SQLite-based annotations in Bioconductor

Facilities for Filtering Bioconductor Annotation Resources

Tools for building SQLite-based annotation data packages

AnnotationGx: A package for building, updating and querying an annotation database for pharmaco-genomic data

geneChip Analysis Package

Assess Gene Predictions Using Proteomics and Evolutionary Conservation

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

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