Description Usage Arguments Value

Used for internal optimization. Not intended for users.

1 |

`theta` |
Numeric vector. Parameters associated with |

`W` |
Numeric vector of counts |

`M` |
Numeric vector of sequencing depth |

`X` |
Matrix of covariates associated with abundance (including intercept) |

`X_star` |
Matrix of covariates associated with dispersion (including intercept) |

`np` |
Number of covariates associated with abundance (including intercept) |

`npstar` |
Number of covariates associated with dispersion (including intercept) |

`link` |
ink function for abundance covariates |

`phi.link` |
ink function for dispersion covariates |

`logpar` |
Boolean. Defaults to |

Gradient of likelihood with respect to parameters

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