Man pages for zh542370159/dropSplit
Automatically identify cell-containing and empty droplets for droplet-based scRNAseq data using dropSplit
| CallCellRangerV2 | CellRanger_v2 method used to recognize cell-containing... |
| CallCellRangerV3 | CellRanger_v3 method used to recognize cell-containing... |
| CallEmptyDrops | EmptyDrops method used to recognize cell-containing droplets. |
| CallzUMIs | zUMI method used to recognize cell-containing droplets. |
| CellCalling | Call cell-containg droplets using different methods. |
| CellEfficiency | Calculate the Efficiency for the cells according to the... |
| CellEntropy | Calculate entropy for each cell according to the feature... |
| CellGini | Calculate the Gini index for the cells according to the... |
| CellRedundancy | Calculate the Redundancy for the cells according to the... |
| compute_ambient_pvalues | Compute p-values for observed multinomial log-likelihoods |
| curvatureCalcluate | Calculate curvature from the given x and y. |
| dropSplit | Automatically identify cell-containing and empty droplets for... |
| est_background_profile_sgt | Estimate a gene expression profile on a given subset of... |
| estimate_profile_sgt | Estimate a gene expression profile by Simple Good Turing |
| eval_multinomial_loglikelihoods | Compute the multinomial log PMF for many barcodes |
| find_inflection | Find the index of inflection in a numeric vector. |
| find_nonambient_barcodes | Call barcodes as being sufficiently distinct from the ambient... |
| find_peaks | Find the index of peaks in a sequence of numeric values. |
| ImportancePlot | Plot the feature importance |
| maxCellEntropy | Calculate the max entropy for the cells when given the same... |
| outliers | The IQR method of identifying outliers. |
| QCplot | QC plot for droplets using meta_info generated by dropSplit. |
| RankMSE | Calculate Mean Squared Error for nCount/nFeature Rank. |
| sgt_proportions | Use Simple Good-Turing estimate to adjust for unobserved... |
| simComplexCounts | Simulate a complex counts matrix including different types of... |
| simple_good_turing | Make a Simple Good-Turing estimate of the frequencies. |
| simSimpleCounts | Simulate simple counts matrix for the empty and... |
| simulate_multinomial_loglikelihoods | Simulate draws from a multinomial distribution for various... |
| xgbOptimization | Bayesian optimization for XGBoost. |
