Man pages for PavlidisLab/markerGeneProfile
Cell type marker gene profiles in whole tissue samples
| findGene | Find if a marg |
| fullEstimate | Full cell type profile estimation pipeline with plot outputs. |
| geom_boxvio | A violin plot overlayed by a boxplot |
| groupRotations | Calculates rotations based on each group |
| list | Get individual components of a list output |
| markerCandidates | Write candidate marker genes to a file |
| memoReg | Memoised version of regionize function |
| mgpEstimate | Calculate cell type profile estimations |
| mgp_LesnickParkinsonsExp | Crop of Lesnick et al. dataset of Parkinson's disease... |
| mgp_LesnickParkinsonsMeta | Crop of Lesnick et al. dataset of Parkinson's disease... |
| mgp_sampleProfiles | Mock dataset for cell type profiles |
| mgp_sampleProfilesMeta | Mock metadata for the mock dataset for cell type profiles |
| mostVariable | Select most variable probeset |
| mouseMarkerGenes | Brain cell type specific genes |
| mpg_sampleRegionHiearchy | Mock hierarchy of regions |
| nametree | Displays a list as a tree |
| pickMarkers | Pick marker genes out of candidate lists |
| plotEstimates | Plot cell type profile estimates |
| reexports | Objects exported from other packages |
| regionize | Create cell type annotations per region. |
| replaceElement | Replaces elements of a vector based on the dictonary provided |
| scale01 | Scales vector into a 0-1 interval |
| scaleToInt | Scales vector to arbitrary interval |
| sepExpr | Seprate expression data from gene annotations |
| subset-.result | Get individual components of a list output |
| toColor | Turn every member of Vector to a color from the palette |
