Description Usage Arguments Value Author(s)

View source: R/GenePvalsFromEset.R

The 'alpha' part of RRAalpha is used to consider only the top guide-level scores for gene-level statistics. Practically, all guides failing the cutoff get a pvalue of 1. There are three ways of determining which guides fail. See 'scoring' below.

1 2 3 4 5 | ```
ct.applyAlpha(
stats,
RRAalphaCutoff = 0.1,
scoring = c("combined", "pvalue", "fc")
)
``` |

`stats` |
three-column numeric matrix with pvalues for down and up one-sided test with guide-level fold changes (coefficients from the relevant contrast). |

`RRAalphaCutoff` |
A cutoff to use when defining gRNAs with significantly altered abundance during the RRAa aggregation step, which may be specified
as a single numeric value on the unit interval or as a logical vector. When supplied as a logical vector (of length equal to |

`scoring` |
The gRNA ranking method to use in RRAa aggregation. May take one of three values: |

data.frame with guide-level pvals, fold change, and scores.deplete and scores.enrich which are the input the RRAalpha

Russell Bainer

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