# Integrative Multi-Omics Analysis of Host Transcriptomics and Gut Microbiome Data

## Documentation for package ‘MultiOmicsBridge’ version 0.99.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS

## Help Pages

MultiOmicsBridge-package | MultiOmicsBridge: Integrative Multi-Omics Analysis of Host Transcriptomics and Gut Microbiome Data
biomarkerDiscovery | Multi-Omics Biomarker Discovery
biomarkers | Accessor for biomarker table in a MOBResult
biomarkers-method | Accessor for biomarker table in a MOBResult
diagnosticClassifier | Integrated Diagnostic Classifier with Multi-Omics Comparison
example_multiomics | Example Multi-Omics Dataset for MultiOmicsBridge
featureLoadings | Accessor for feature loadings in a MOBResult
featureLoadings-method | Accessor for feature loadings in a MOBResult
generateReport | Generate a Structured Summary Report of MultiOmicsBridge Results
integrationScores | Accessor for integrated sample scores in a MOBResult
integrationScores-method | Accessor for integrated sample scores in a MOBResult
jointDimReduction | Joint Dimensionality Reduction via Sparse Multi-Block PLS-DA
loadHostData | Load and Normalize Host Bulk RNA-seq Data
loadMicrobiomeData | Load and Normalize Microbiome Taxa Table Data
matchSamples | Match Paired Samples Across Host and Microbiome Datasets
MOBResult | Constructor for MOBResult
MOBResult-class | MOBResult: Multi-Omics Bridge Result Container
MultiOmicsBridge | MultiOmicsBridge: Integrative Multi-Omics Analysis of Host Transcriptomics and Gut Microbiome Data
MultiOmicsBridgeAnalysis | Full Multi-Omics Integration Analysis Pipeline
performance | Accessor for classifier performance in a MOBResult
performance-method | Accessor for classifier performance in a MOBResult
plotBiomarkerNetwork | Cross-Omics Biomarker Correlation Heatmap
plotClassifierComparison | ROC Curve Comparison of Host-Only, Microbiome-Only, and Joint Classifiers
plotIntegration | Joint Biplot of Multi-Omics Integration Results
plotSankey | Feature Flow Diagram: Omics Layer to Biomarkers to Outcome
show-method | Show method for MOBResult