Flow Cytometry and Single Cell Analysis

aDist_mtx | Calculates the Aitchison (compositional) distance between... |

comp_svd | Spectral Map Analysis Input V must be linear |

CQ | Calculates eigenvalue spectrum at different values of q |

do_plots | makes lineplots |

get_bins_lineplot | splits a datamatrix D into bins with respect to the output of... |

get_xtab | After binning the data, make a table with the nearly empty... |

GRV | calculates the generalised RV coefficient of two matrices |

logratio_data | transforms compositional data for a biplot. First, each row... |

make_bins | bins a dimension-reduced pooled dataset. Can be with PCA or... |

make_biplot | make a biplot from a singular value decomposition |

make_breaks | Calculates common breaks of all datasets for each channel |

make_burt | Converts each matrix into a burt matrix, consisting of marker... |

make_cell_coexp | For every possible pair of markers, find the ratio of the... |

make_cross_correlation | Finds the cross-correlation between total frequencies and... |

make_grid_index | This takes a combined data matrix (generally dimension has... |

make_lineplot_data | puts a data matrix (compensated, uncompensated) into a format... |

make_rsq | Looks at the relationship between correlation of total marker... |

make_sample_coexp | Finds the ratio of marker frequency in a sample to average... |

make_twoD_marginal | For every possible pair of markers, find the ratio of the... |

mtx_thres | Threshold a correlation matrix such that all values less than... |

outlier_pretrim | trim the data before starting |

replace_zero | replaces zero with a small value |

row_col_center | pre-processing a data matrix for spectral map analysis |

sample_data | take samples from data. Always use with set.seed for... |

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