cutoff-omics_network-method: Choose the best cutoff

In Patterns: Deciphering Biological Networks with Patterned Heterogeneous Measurements

Choose the best cutoff

Description

Allows estimating the best cutoff. For a sequence of cutoff, the p value corresponding to each cutoff value of the sequence. Mainly recommended for single time cascade networks. To achieve more sparsity in other settings, please use a fiiting function based on the stability selection or selectboost algorithms.

Usage

## S4 method for signature 'omics_network'
cutoff(Omega, sequence = NULL, x_min = 0)

Arguments

Omega	a omics_network object
sequence	a vector corresponding to the sequence of cutoffs that will be tested.
x_min	an integer ; only values over x_min are further retained for performing the test.

Value

A list containing two objects :

p.value	the p values corresponding to the sequence of cutoff
p.value.inter	the smoothed p value vector, using the loess function

Author(s)

Bertrand Frederic, Myriam Maumy-Bertrand.

Examples

		data(network)
		cutoff(network)
		#See vignette for more details

Patterns documentation built on Dec. 1, 2022, 5:09 p.m.