Bioconductor Topics

Analysis Of Differential Abundance Taking Sample and Scale Variation Into Account

Adaptive Signature Selection and InteGratioN (ASSIGN)

A Bayesian Approach for Geneset Selection

BANDITS: Bayesian ANalysis of DIfferenTial Splicing

Bayesian Analysis of Single-Cell Sequencing data

Stan implementation of BASiCS

Performs Bayesian GWAS analysis for non-Gaussian data using BG2

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

BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes

BayesKnockdown: Posterior Probabilities for Edges from Knockdown Data

CBN2Path: an R/Bioconductor package for the analysis of cancer progression pathways using Conjunctive Bayesian Networks

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

Infers clonal composition of a tumor

Clustering of Immune Receptor Repertoires

Coordinated Gene Activity in Pattern Sets

Differential gene expression analysis based on the negative binomial distribution

Differentially Methylated Cytosines via a Bayesian Functional Approach

Genome-wide Detection of Differential ORF Usage

Differentially regulated genes from scRNA-seq data

EBcoexpress for Differential Co-Expression Analysis

Gene Regulatory Network Inference Using Time Series

Bayesian analysis of Gaussian GWAS data

Combines WGCNA and xCell readouts with bayesian network learrning to generate a Gene-Module Immune-Cell network (GMIC)

HiCPotts: Hierarchical Modeling to Identify and Correct Genomic Biases in Hi-C

Conducting statistical inference on comparing the mutational exposures of mutational signatures by using hierarchical latent Dirichlet allocation

Hierarchical Inference of Spatial Positions from Hi-C Data

Integrate TWAS and Colocalization Analysis for Gene Set Enrichment Analysis

Differential gene usage in immune repertoires

IsoBayes: Single Isoform protein inference Method via Bayesian Analyses

Inference of gene regulatory networks from gene expression data

Multi-Omics Factor Analysis v2

Bayesian clustering and imputationa of single cell methylomes

Evaluation of normalization methods and calculation of differential expression analysis statistics

A Robust and Scalable Software Package for Reproducible Analysis of High-Throughput genotype-phenotype association

PRObabilistic Pathway Score (PROPS)

3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process

R package for RIVER (RNA-Informed Variant Effect on Regulation)

Bayesian hierarchical model for genome-wide nucleosome positioning with high-throughput short-read data (MNase-Seq)

R/Bioconductor interface to the Sanity model gene expression analysis

StatescopeR framework for discovery of cell states from cell type-specific gene expression profiles inferred from bulk mRNA profiles

TRONCO, an R package for TRanslational ONCOlogy

GUI for limma Package with Affymetrix Microarrays

Approximate posterior estimation for GLM coefficients

Controlling bias and inflation in association studies using the empirical null distribution

An R package for the Bayesian analysis of differential subcellular localisation experiments

Bayesian ANalysis Of Compositional Covariance

Empirical Bayesian analysis of patterns of differential expression in count data