Man pages for Oshlack/speckle
Statistical methods for analysing single cell RNA-seq data
| classifySex | Predict sex of cells in scRNA-seq data |
| dot-extractSCE | Extract metadata from 'SingleCellExperiment' object |
| dot-extractSeurat | Extract metadata from 'Seurat' object |
| estimateBetaParam | Estimate the parameters of a Beta distribution |
| estimateBetaParamsFromCounts | Estimate parameters of a Beta distribution from counts |
| getTransformedProps | Calculates and transforms cell type proportions |
| ggplotColors | Output a vector of colours based on the ggplot colour scheme |
| normCounts | Normalise a counts matrix to the median library size |
| normSca | Normalise and scale counts matrix |
| plotCellTypeMeanVar | Plot cell type counts means versus variances |
| plotCellTypeProps | Plot cell type proportions for each sample |
| plotCellTypePropsMeanVar | Plot cell type proportions versus variances |
| preprocess | Pre-processing function for sex classification |
| propeller | Finding statistically significant differences in cell type... |
| propeller.anova | Performs F-tests for transformed cell type proportions |
| propeller.ttest | Performs t-tests of transformed cell type proportions |
| speckle_example_data | Generate example data |
| speckle-package | speckle: Statistical methods for analysing single cell... |
