Man pages for jyxi7676/SiftCell
SiftCell framework to identify cell containing and cell free droplets
| constraintFn | This defines the equality constraint for the vector of... |
| detectFlagCells | The function detects the droplet barcode that are flag Cells... |
| detectHVG | This function detect highly variable genes via package... |
| detectOutlier | This function detect barcodes with pseudo positive labels |
| dgeShuffle | This function generate shuffled DGE |
| getAmbientProp | Rcpp function to get the gene profile of ambient droplets |
| getGeneProfile | This function get the gene profile |
| getP | This function get the proportion coefficient for Multinomial... |
| labelData | This function generate positive and negative pseudo-labels. |
| logNormalizeUMI | The function log normalize the DGE with only Highly variable... |
| objectiveFn | This function defines the objective function |
| prepData | The function prepares data for Original and shuffled DGE |
| pydemo | the function is a demo |
| readDGE | This function read the DGE |
| runPCA | The function get the top 100 PC of HVG for both original and... |
| runXGBoostPy | This function source python code and run XGBoost |
| SiftCellBoost | This function runs SiftCell-Boost, it generates a file of... |
| SiftCellMix | This function runs SiftCellMix |
| SiftCell-package | A short title line describing what the package does |
| SiftCellShuffle | The function generate shuffleDGE |
