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

EnsDbs for AnnotationHub

LRBaseDbs for AnnotationHub

MassBank Annotation Resources for AnnotationHub

MeSHDbs for AnnotationHub

Metabolites and proteins linked to PathBank pathways (for AnnotationHub)

Metabolites linked to WikiPathways pathways (for AnnotationHub)

AIMS : Absolute Assignment of Breast Cancer Intrinsic Molecular Subtype

Analysis Of Differential Abundance Taking Sample and Scale Variation Into Account

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

Analysis of alternative poly A site usage

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

ASpedia-FI: Functional Interaction Analysis of Alternative Splicing Events

Analysis of Alternative Splicing Using RNA-Seq

Analysis Tools for scATACseq Data with CoGAPS

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

Affymetrix GeneChip software compatibility

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

Investigates Allele Specific Expression

Statistical analysis of sequins

Analysis of Copy Number Variation in Single-Cell-Sequencing Data

Manipulation of SQLite-based annotations in Bioconductor

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

ArrayExpress High Throughput Sequencing Processing Pipeline

geneChip Analysis Package

Annotated variants on the chromosome 21, human genome 19, Ashkenazim Trio son sample

Gene Expression Atlas query and gene set enrichment package.

Automated parameter selection for untargeted metabolomics data processing

Bayesian Analysis of Chip-chip experiment

Bayesian Analysis of Differential Expression in RNA Sequencing Data

BANDITS: Bayesian ANalysis of DIfferenTial Splicing

Bayesian Analysis of Single-Cell Sequencing data