Man pages for facopy
Feature-based association and gene-set enrichment for copy number alteration analysis in cancer
| addFeatures | Add Feature Annotation |
| addVariables | Add Variable Annotation |
| alterationSummary | Alteration Summary |
| calculateCor | Calculate Correlation Between Copy Number and Expression |
| facopy | Feature-Based Copy Number Association Analysis |
| facopyEnrichment | Gene-set Enrichment Analysis |
| facopyInfo-class | Class '"facopyInfo"' |
| facopy-package | facopy: feature-based association and gene-set enrichment for... |
| facopyPlot | Plot a Genome-Wide Overview of Association Results |
| getFacopyInfo | List Available facopy Input and Characteristics |
| myCalls | Example facopy Object with Just Copy Number Calls |
| myStudy | Example Complete facopy Object |
| myVariables | Example Phenotypic Annotation |
| plotBar | Overview of Alterations by Chromosome Arm |
| plotHist | Stacked Histograms |
| plotPCA | facopy PCA |
| plotZoom | Zoom In to Plot a Chromosome Arm or a Genomic Feature |
| preview | Alteration and Varible Preview |
| readCNData | Read Copy Number Data |
| variableCor | Variable Correlations |
| variableSummary | Variable Summary |
