hgate_info: hgate_info

Description Usage Arguments Value See Also Examples

View source: R/hypergate.R

Description

Extract information about a hypergate return: the channels of the phenotype, the sign of the channels, the sign of the comparison, the thresholds. The function could also compute the Fscores if the xp, gate_vector and level parameters are given.

Usage

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hgate_info(hgate, xp, gate_vector, level, beta = 1)

Arguments

hgate

A hypergate object (produced by hypergate())

xp

The expression matrix from which the 'hgate' parameter originates, needed for Fscore computation

gate_vector

Categorical data from which the 'hgate' parameter originates, needed for Fscore computation

level

Level of gate_vector identifying the population of interest, needed for Fscore computation

beta

Beta to weight purity (low beta) or yield (high beta) more, needed for Fscore computation

Value

A data.frame with channel, sign, comp and threshold columns, and optionnally deltaF (score deterioration when parameter is ignored),Fscore1d (F_value when using only this parameter) and Fscore (F score when all parameters up to this one are included). Fscores are computed if xp, gate_vector and level are passed to the function.

See Also

hg_pheno, hg_rule

Examples

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data(Samusik_01_subset)
xp=Samusik_01_subset$xp_src[,Samusik_01_subset$regular_channels]
gate_vector=Samusik_01_subset$labels
hg=hypergate(xp=xp,gate_vector=gate_vector,level=23,delta_add=0.01)
hgate_info(hgate=hg)
hgate_pheno(hgate=hg)
hgate_rule(hgate=hg)

ebecht/hypergate documentation built on March 9, 2020, 4:05 p.m.