Man pages for jlaffy/infercna
Infer Copy Number Alterations And Clonality In (Single-Cell) RNA-seq Data
| addGenome | Add your own Genome |
| availableGenomes | List of available genomes |
| bt771 | scRNA-seq data from a patient with Glioblastoma |
| clip | Squish matrix values into range |
| cnaCor | Cell - Tumour CNA Correlations |
| cnaHotspotCells | Find the Cells with the highest CNA signal |
| cnaHotspotGenes | Find the Genes with the highest CNA signal |
| cnaParamsPlot | Plot CNA parameters to evaluate cell CNAs |
| cnaScatterPlot | Visualise Malignant and Non-Malignant Subsets |
| cnaSignal | Calculate the Means of Squared CNA Values |
| currentGenome | List the current genome name |
| expandToClones | FUNCTION_TITLE |
| fetchModes | FUNCTION_TITLE |
| filterGenes | Filter Genes by their Genome Features |
| findClones | Find Clones |
| findMalignant | Find Malignant Subset of Cells |
| fitBimodal | Fit a Bimodal Gaussian Distribution |
| fitModal | Fit a Bimodal Gaussian Distribution |
| genesOn | Retrieve Genes by their Genome Features |
| ggcna | Plot a CNA heatmap |
| infercna | Infer Copy-Number Alterations From Single-Cell RNA-Seq Data |
| mgh125 | scRNA-seq data from a patient with Glioblastoma |
| modality | Test Distribution For Modality |
| orderGenes | Order Genes by their Genomic Positions |
| pipe | Pipe operator |
| reexports | Objects exported from other packages |
| refCells | Normal Cell IDs in a cohort of 28 Glioblastoma samples. |
| refCorrect | Convert Relative CNA Values To Absolute |
| retrieveGenome | Retrieve genome data |
| runMean | Rolling Means |
| splitGenes | Split Genes By Chromosome (Arm) |
| theme_scalop | scalop ggtheme |
| useData | Load Example Data |
| useGenome | Select a Genome for infercna to use |
