similarities: Apply a function to a list of similarities

In llrs/BioCor: Functional similarities

Apply a function to a list of similarities

Description

Function to join list of similarities by a function provided by the user.

Usage

similarities(sim, func, ...)

Arguments

sim	list of similarities to be joined. All similarities must have the same dimensions. The genes are assumed to be in the same order for all the matrices.
func	function to perform on those similarities: prod, sum... It should accept as many arguments as similarities matrices are provided, and should use numbers.
...	Other arguments passed to the function func. Usually na.rm or similar.

Value

A matrix of the size of the similarities

Note

It doesn't check that the columns and rows of the matrices are in the same order or are the same.

Author(s)

Lluís Revilla

See Also

weighted() for functions that can be used, and addSimilarities() for a wrapper to one of them

Examples

set.seed(100)
a <- seq2mat(LETTERS[1:5], rnorm(10))
b <- seq2mat(LETTERS[1:5], seq(from = 0.1, to = 1, by = 0.1))
sim <- list(b, a)
similarities(sim, weighted.prod, c(0.5, 0.5))
# Note the differences in the sign of some values
similarities(sim, weighted.sum, c(0.5, 0.5))

llrs/BioCor documentation built on April 24, 2024, 5:50 p.m.