Biocview "Bayesian"

3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process
3CPET: Finding Co-factor Complexes in Chia-PET experiment using a Hierarchical Dirichlet Process
A Bayesian Approach for Geneset Selection
A collection of PCA methods
A collection of PCA methods
Adaptive penalization in high-dimensional regression and classification with external covariates using variational Bayes
Adaptive Signature Selection and InteGratioN (ASSIGN)
Adaptive Signature Selection and InteGratioN (ASSIGN)
Adaptive Signature Selection and InteGratioN (ASSIGN)
Analysis Of Differential Abundance Taking Sample Variation Into Account
Analysis Of Differential Abundance Taking Sample Variation Into Account
Analyze Gene Sets Collections Properites
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
An R package for the analysis and result reporting of RNA-Seq data by combining multiple statistical algorithms
Approximate posterior estimation for GLM coefficients
Approximate posterior estimation for GLM coefficients
A Robust and Scalable Software Package for Reproducible Analysis of High-Throughput genotype-phenotype association
A Robust and Scalable Software Package for Reproducible Analysis of High-Throughput genotype-phenotype association
Assess epigenetic heterogeneity with proportion of intermediate methylation
Assess epigenetic heterogeneity with proportion of intermediate methylation
A tool for quantification of associations between genotypes and phenotypes in genome wide association studies (GWAS) with Bayesian inference and statistical learning
A tool for quantification of associations between genotypes and phenotypes in genome wide association studies (GWAS) with Bayesian inference and statistical learning
a tool to perform statistical analysis of differential protein expression for quantitative proteomics data.
a tool to perform statistical analysis of differential protein expression for quantitative proteomics data.
BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes
BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes
BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes
BANDITS: Bayesian ANalysis of DIfferenTial Splicing
BANDITS: Bayesian ANalysis of DIfferenTial Splicing
Batch Effects Correction with Unknown Subtypes
Batch Effects Correction with Unknown Subtypes
Bayesian analysis for identifying gene or isoform expression changes in ordered RNA-seq experiments
Bayesian analysis for identifying gene or isoform expression changes in ordered RNA-seq experiments
Bayesian ANalysis Of Compositional Covariance
Bayesian ANalysis Of Compositional Covariance
Bayesian ANalysis Of Compositional Covariance
Bayesian Analysis of Single-Cell Sequencing data
Bayesian Analysis of Single-Cell Sequencing data
Bayesian clustering and imputationa of single cell methylomes
Bayesian clustering and imputationa of single cell methylomes
Bayesian hierarchical mixture of factor analyzers for modelling genomic bifurcations
Bayesian hierarchical mixture of factor analyzers for modelling genomic bifurcations
Bayesian hierarchical model for genome-wide nucleosome positioning with high-throughput short-read data (MNase-Seq)
Bayesian hierarchical model for genome-wide nucleosome positioning with high-throughput short-read data (MNase-Seq)
Bayesian hierarchical model for genome-wide profiling of nucleosome positions based on high-throughput short-read data (MNase-Seq data)
Bayesian Inference of Regulatory Influence on Expression (biRte)
Bayesian mixture models for copy number polymorphisms
Bayesian mixture models for copy number polymorphisms
BayesKnockdown: Posterior Probabilities for Edges from Knockdown Data
BayesKnockdown: Posterior Probabilities for Edges from Knockdown Data
Better prediction by use of co-data: Adaptive group-regularized ridge regression
Better prediction by use of co-data: Adaptive group-regularized ridge regression
Cancer Clone Finder
Cancer Clone Finder
Cell birth and death rates estimation
CEllular Latent Dirichlet Allocation
CEllular Latent Dirichlet Allocation
CEllular Latent Dirichlet Allocation
ChIP-Seq Statistical Power
ChIP-Seq Statistical Power
Clustering of Time Series Gene Expression data
Clustering of Time Series Gene Expression data
Combines WGCNA and xCell readouts with bayesian network learrning to generate a Gene-Module Immune-Cell network (GMIC)
Combines WGCNA and xCell readouts with bayesian network learrning to generate a Gene-Module Immune-Cell network (GMIC)
CommunityAMARETTO: A Computational Tool for the Discovery of Shared and Distinct Regulatory Mechanisms Across Biological Systems
Computational pipeline for computing probability of modification from structure probing experiment data
Computational pipeline for computing probability of modification from structure probing experiment data
Conducting statistical inference on comparing the mutational exposures of mutational signatures by using hierarchical latent Dirichlet allocation
Conducting statistical inference on comparing the mutational exposures of mutational signatures by using hierarchical latent Dirichlet allocation
Controlling bias and inflation in association studies using the empirical null distribution
Coordinated Gene Activity in Pattern Sets
Coordinated Gene Activity in Pattern Sets
Covariate Assisted Large-scale Multiple testing
Covariate Assisted Large-scale Multiple testing
Decomposing Heterogeneous Cohorts using Omic Data Profiling
Decomposing Heterogeneous Cohorts using Omic Data Profiling
dgeAnalysis
Differential Abundance Analysis of Label-Free Mass Spectrometry Data
Differential Abundance Analysis of Label-Free Mass Spectrometry Data
Differential gene expression analysis based on the negative binomial distribution
Differential gene expression analysis based on the negative binomial distribution
Differential gene usage in immune repertoires
Differential gene usage in immune repertoires
Differential gene usage in immune repertoires
Differentially Methylated Cytosines via a Bayesian Functional Approach
Differentially Methylated Cytosines via a Bayesian Functional Approach
dycone - analyze the dynamic landscape of metabolome data
EBcoexpress for Differential Co-Expression Analysis
EDLogo Plots Featuring String Logos and Adaptive Scaling of Position-Weight Matrices
EDLogo Plots Featuring String Logos and Adaptive Scaling of Position-Weight Matrices
Empirical Analysis of Digital Gene Expression Data in R
Empirical Bayes estimate of block diagonal covariance matrices
Empirical Bayes estimate of block diagonal covariance matrices
Estimating Local False Discovery Rates Using Empirical Bayes Methods
Evaluation of normalization methods and calculation of differential expression analysis statistics
Evaluation of normalization methods and calculation of differential expression analysis statistics
GEMINI: Variational inference approach to infer genetic interactions from pairwise CRISPR screens
GEMINI: Variational inference approach to infer genetic interactions from pairwise CRISPR screens
Gene Regulatory Network Inference Using Time Series
Genome wide association studies of multiple traits with Bayesian multilvel models
Genome wide association studies of multiple traits with Bayesian multilvel models
Genome wide association studies of multiple traits with Bayesian multilvel models
Genomic trajectories with heterogeneous genetic and environmental backgrounds
GUI for limma Package with Affymetrix Microarrays
GUI for limma Package With Two Color Microarrays
Hierarchical Bayesian Analysis of Differential Expression and ALternative SPlicing (HBA-DEALS)
ImagingAMARETTO: tools for interpreting multi-omics networks for relevance to clinical outcomes and radiographic and histopathology imaging-derived biomarkers
Infer Copy Number Variation from Single-Cell RNA-Seq Data
Infer Copy Number Variation from Single-Cell RNA-Seq Data
Infer Copy Number Variation from Single-Cell RNA-Seq Data
Infers clonal composition of a tumor
Interpretable marker-based single-cell pseudotime using Bayesian parametric models
Interpretable marker-based single-cell pseudotime using Bayesian parametric models
Linear Models for Microarray Data
Log fold change distribution tools for working with ratios of counts
Log fold change distribution tools for working with ratios of counts
Meta-analysis for the metagenomic read counts data from different cohorts
Methylation Analysis Based on Signal Detection
MethylIT utility
Mixture modeling of single-cell RNA-seq data to identify genes with differential distributions
Mixture modeling of single-cell RNA-seq data to identify genes with differential distributions
Model higher-order methylation profiles
Model higher-order methylation profiles
Model higher-order methylation profiles
Mosaic Aneuploidy Detection and Quantification using Massive Parallel Sequencing Data
Mosaic Aneuploidy Detection and Quantification using Massive Parallel Sequencing Data
Multilevel Model for Multivariate Responses with Missing Values
Multi-Omics Factor Analysis (MOFA)
Multi-Omics Factor Analysis (MOFA)
Normalization and difference calling in ChIP-seq data
Normalization and difference calling in ChIP-seq data
Pathway Enrichment Analysis Based on Bayesian Network
Pathway Enrichment Analysis Based on Bayesian Network
PRObabilistic Pathway Score (PROPS)
PRObabilistic Pathway Score (PROPS)
Propagating Uncertainty in Microarray Analysis(including Affymetrix tranditional 3' arrays and exon arrays and Human Transcriptome Array 2.0)
R-Causal Library
Regression-based network inference using Bayesian Model Averaging
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
Regulatory Network Inference and Driver Gene Evaluation using Integrative Multi-Omics Analysis and Penalized Regression
R package for RIVER (RNA-Informed Variant Effect on Regulation)
R package for RIVER (RNA-Informed Variant Effect on Regulation)
R package for RIVER (RNA-Informed Variant Effect on Regulation)
Sensitive and highly resolved identification of RNA-protein interaction sites in PAR-CLIP data
Sensitive and highly resolved identification of RNA-protein interaction sites in PAR-CLIP data
Single Cell Differential Expression
Single Cell Differential Expression
Sparse Data Observations for Simulating Synthetic Abundance
Sparse Data Observations for Simulating Synthetic Abundance
Transcript expression inference and differential expression analysis for RNA-seq data
Transcription factor Inference through Gaussian process Reconstruction of Expression
Transcription factor Inference through Gaussian process Reconstruction of Expression
TRONCO, an R package for TRanslational ONCOlogy
TRONCO, an R package for TRanslational ONCOlogy
Variance Adaptive Shrinkage
Visual Exploration of Omic Datasets Using a Shiny App
Visual Exploration of Omic Datasets Using a Shiny App
Visual Exploration of Omic Datasets Using a Shiny App