Description Usage Arguments Value Author(s) See Also

Infer angles or cell cycle phase based on gene expression data

1 2 | ```
cycle_npreg_loglik(Y, sigma_est, funs_est, grids = 100,
method.grid = c("pca", "uniform"))
``` |

`Y` |
Gene by sample expression matrix. |

`sigma_est` |
A vector of standard errors for each gene from the training data. |

`funs_est` |
A vector of cyclic functions estimated for each gene from the training data. |

`grids` |
number of bins to be selected along 0 to 2pi. |

`method.grid` |
The approach to initialize angles in the
computation. |

A list with the following three elements:

`cell_times_est` |
Inferred angles or cell cycle phases, NOT ordered. |

`loglik_est` |
Log-likelihood estimates for each gene. |

`prob_per_cell_by_celltimes` |
Probabilities of each cell belong to each bin. |

Joyce Hsiao

`initialize_grids`

for selecting
angles in `cycle_npreg_loglik`

,
`cycle_npreg_mstep`

for estimating cyclic functions given
inferred phases from `cycle_npreg_loglik`

,
`cycle_npreg_outsample`

for predicting cell cycle phase
using parameters learned from `cycle_npreg_insample`

Other peco classifier functions: `cycle_npreg_insample`

,
`cycle_npreg_mstep`

,
`cycle_npreg_outsample`

,
`initialize_grids`

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