Description Usage Arguments Value Examples

View source: R/freq_estimate.R

`freq_estimate()`

estimates the frequencies of clones with confidence
intervals by using a maximum likelihood approach. The function looks at
the wells that a chains of a clone appear in and determines the most
likely frequency that explains the data.

1 | ```
freq_estimate(alpha, beta, pair, error = 0.15, numb_cells)
``` |

`alpha` |
Matrix recording which alpha chains appear in each well of the
data. See |

`beta` |
Matrix recording which beta chains appear in the each well of the
data. See |

`pair` |
A matrix where each row is a beta/alpha pair, column 1 and 2 are the beta indices, and column 3 and 4 are the alpha indices, and column 5 is the proportion of replicates the clone was found in (or equal to -1 if the clone is dual) |

`error` |
The mean error "dropped" chain rate due to PCR or sequencing errors. |

`numb_cells` |
The number of cells per well in each column of the plates. Should be a vector of 12 elements. |

A data frame with frequency estimates and confidence intervals

1 2 3 4 5 6 7 8 9 |

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