Man pages for peco
A Supervised Approach for **P**r**e**dicting **c**ell Cycle Pr**o**gression using scRNA-seq data
| cellcyclegenes_whitfield2002 | list of cell cycle genes identified in Whitfield et al. 2002. |
| circ_dist | Pairwise distance between two circular variables |
| cycle_npreg_insample | Obtain cyclic trend estimates from the training data |
| cycle_npreg_loglik | Infer angles or cell cycle phase based on gene expression... |
| cycle_npreg_mstep | Estimate parameters of the cyclic trends |
| cycle_npreg_outsample | Predict test-sample ordering using training labels (no... |
| data_transform_quantile | Transform counts by first computing counts-per-million (CPM),... |
| fit_bspline | Use bsplies to cyclic trend of gene expression levels |
| fit_cyclical_many | Compute proportation of variance explained by cyclic trends... |
| fit_loess | Use loess to estimate cyclic trends of expression values |
| fit_trendfilter | Using trendfiltering to estimate cyclic trend of gene... |
| initialize_grids | For prediction, initialize grid points for cell cycle phase... |
| intensity2circle | Infer angles for each single-cell samples using fluorescence... |
| model_5genes_predict | A SingleCellExperiment object |
| model_5genes_train | Traing model results among samples from 5 individuals. |
| rotation | Rotate circular variable shift_var to minimize distance... |
| sce_top101genes | Molecule counts of the 101 significant cyclical genes in the... |
| shift_origin | Shift origin of the angles |
| training_human | Training data from 888 single-cell samples and 101 top cyclic... |
