Bioconductor Topics

ADAM: Activity and Diversity Analysis Module

Adaptive Dropout Imputer (ADImpute)

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

A toolkit for APA analysis using RNA-seq data

Association Plots

Adaptive Signature Selection and InteGratioN (ASSIGN)

Functional annotation-driven unsupervised clustering for single-cell data

Analysis of Alternative Splicing Using RNA-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

Statistical analysis of sequins

BANDITS: Bayesian ANalysis of DIfferenTial Splicing

Bayesian Analysis of Single-Cell Sequencing data

Stan implementation of BASiCS

Model higher-order methylation profiles

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

Spatial transcriptomic clustering

Batch Effects Quality Control Software

BayesKnockdown: Posterior Probabilities for Edges from Knockdown Data

Clustering and Resolution Enhancement of Spatial Transcriptomes

Automatic RNA-Seq present/absent gene expression calls generation

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

Binding site defintion based on iCLIP data

Functional Similarities

Biological Network Reconstruction Omnibus

Routines for the functional analysis of biological networks

BioTIP: An R package for characterization of Biological Tipping-Point

Representing Different Biological Sets

This R package for performing module repertoire analyses and generating fingerprint representations

Cohort-aware methods for intrinsic molecular subtyping of breast cancer

Category encoding method for selecting feature genes for the classification of single-cell RNA-seq

Chromosmal Aberrations Finder in Expression data

Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor

Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining

A CAusal Reasoning tool for Network Identification (from gene expression data) using Integer VALue programming

plot bayesian network inferred from gene expression data based on enrichment analysis results

PROMISE analysis with Canonical Correlation for Two Forms of High Dimensional Genetic Data

Co-expression Modules identification Tool

Fast and accurate scRNA-seq cell type identification

Summarization and expression/phenotype association of CNV ranges

COexpression Tables ANalysis

CPSM: Cancer patient survival model

Calculate per-cell gene signature scores in scRNA-seq data using cell set overlaps

Identification of cell-type-specific spatially variable genes accounting for excess zeros