A correlation-based method for quality filtering of single-cell RNAseq data

bin_scdata | Bin genes by mean expression. |

calculate_cvs | Compute mean expression level, standard deviation and... |

correlate_windows | Calculate correlations against top window. |

correlations_to_densities | Transform the correlation table to density distributions of... |

define_top_genes | Define the reference window using the most highly expressed... |

determine_bin_cutoff | Determine a threshold for selecting bins of features based on... |

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... |

plot_mean_variance | Produce a mean expression x coefficient of variation scatter... |

plot_metric | Produce a bar chart of mean (or median) correlation... |

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... |

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