Bioconductor Packages

Absolute Copy Number Estimation from Low-coverage Whole Genome Sequencing

Analysis of Microbiome Differential Abundance by Pooling Tobit Models

Adaptive Dropout Imputer (ADImpute)

EnsDbs for AnnotationHub

Analysis Of Differential Abundance Taking Sample and Scale Variation Into Account

Microbiome differential abudance and correlation analyses with bias correction

A toolkit for APA analysis using RNA-seq data

Association Plots

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

Investigates Allele Specific Expression

Manipulation of SQLite-based annotations in Bioconductor

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

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

Model higher-order methylation profiles

Forge your own BSgenome data package

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

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

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

Swiss-army toolkit for selecting niche fronts and invasive margins in spatial transcriptomics data

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

Processing and analyzing bisulfite sequencing data

Binding site defintion based on iCLIP data

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

Efficient manipulation of biological strings

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

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

Clustering Deviation Index (CDI)

A normalization method for Copy Number Aberration in cancer samples

Reliable CNV detection in targeted sequencing applications

Identifies false positives of CNV calling tools by using SNV calls

Copy Number Visualization

CNVrd2: a read depth-based method to detect and genotype complex common copy number variants from next generation sequencing data.

Coordinate Covariation Analysis

Chip-seq Signal Quantifier Pipeline

Coexpression for Transcription Factors using Regulatory Impact Factors and Partial Correlation and Information Theory analysis

Cellular DNA Barcode Analysis toolkit

Reconstruction, visualization and analysis of branching trajectories