| ann2term | Annotate the pathways from a scores matrix |
| buildRefObject | Create a reference data object for input to the pathMED functions |
| dissectDB | Split pathways into coexpressed subpathways |
| genesetsData | Preloaded gene sets |
| getScores | Calculate pathways scores for a dataset |
| methodsML | Prepare the models parameter for the trainModel function |
| mScores_createReference | Create a reference dataset based on M-scores |
| mScores_filterPaths | Filter pathways from the reference M-scores dataset |
| mScores_imputeFromReference | Estimate M-scores for a dataset without healthy controls |
| pathMEDExampleData | Example of test gene expression data |
| pathMEDExampleMetadata | Metadata of test gene expression data |
| predictExternal | Predict conditions in external datasets |
| refData | Example of reference gene expression datasets |
| trainModel | Train ML models and perform internal validation |