Description Usage Arguments Value Author(s)

Regression methods to estimate a single row in a gene interaction network (*A*) with perturbations (*P*) fixed. These methods differ at the regression criterions: the objective function of *geo* is the geometric mean, sum of square for *sse* and maximum likelihood for *ml*, see *vignette* for the details.

1 2 3 | ```
method.geo(index.vars, X, pert)
method.sse(index.vars, X, pert)
method.ml(index.vars, X, pert, noiseLevel)
``` |

`index.vars` |
A vector to select the rows in |

`X` |
Gene expression data, a matrix with genes as rows and perturbations as columns. |

`pert` |
A vector of row |

`noiseLevel` |
Indicate the noise level in each perturbed experiment. |

` sol ` |
A vector of regression result |

` error ` |
The result of the objective function. |

Wei Xiao, Yin Jin, Darong Lai, Xinyi Yang,Yuanhua Liu, Christine Nardini

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