bin_scdata | Bin genes by mean expression. |
calculate_cvs | Compute mean expression level, standard deviation and coefficient of variation of each feature. |
correlate_windows | Calculate correlations against top window. |
correlations_to_densities | Transform the correlation table to density distributions of correlation values |
define_top_genes | Define the reference window using the most highly expressed features. |
determine_bin_cutoff | Determine a threshold for selecting bins of features based on the metric table |
filter_expression_table | Filter binned expression matrix |
get_mean_median | Extract mean and median correlation coefficient values |
plot_correlations_distributions | Produce a density plot of correlation values for each window of feature |
plot_mean_variance | Produce a mean expression x coefficient of variation scatter plot. |
plot_metric | Produce a bar chart of mean (or median) correlation coefficient per bin of feature. |
plot_top_window_autocor | Utility plot to choose a top_window size |
scData_hESC | Expression data from 32 human embryonic stem cells |
sc_feature_filter | Filter scRNA-seq expression matrix to keep only highly informative features. Integrated pipeline. |