Differentially expressed genes in cell lineages

counts | Returns the counts matrix of the dataset |

dtw_align | Align with dtw two lineages |

dtw_rank | ranking genes with dtw |

elbow_curve | Elbow curve for a ranking |

g.rank | Returns the rank and distance of some genes |

kendall | Compute kendall's tau between two rankings |

kendall.heatmap | Heatmap visualization of multiple kendall comparisons |

likelihood_criteria | Compute pvalues and aic difference criteria |

likelihood_rank | Likelihood ranks |

newrankingDE | Initialize an object of class 'rankingDE' |

newwarpDEDataSet | Initialize an object of class 'warpDEDataSet' |

params | Returns the parameters |

plot_genes | Plot several genes expression patterns |

plot_rankings | Compare two rankings by scatter plotting them |

quantiles_shared | Compare two rankings by counting the shared elements along... |

rankingDE-class | Class 'rankingDE' |

ranking.df | Returns the ranking |

rankings_compare | Compare two rankings with different means |

reg_gam | Plot one gene raw data and its regressions |

t | Returns the pseudotimes |

timeDE | Differential Expression analysis according with time |

w | Returns the pseudotimes |

warpDE_app | Interactive plot for a ranking |

warpDEDataSet | warpDEDataSet constructor |

warpDEDataSet-class | Class 'warpDEDataSet' |

warpDE_rank | Wrapper function for all ranking methods |

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