convertToFromNullDist: Converts COCOA permutation results to null distributions and...

In databio/COCOA: Coordinate Covariation Analysis

Converts COCOA permutation results to null distributions and vice versa

Description

This function will take a list of results of permutation tests that included many region sets and return a list of data.frames where each data.frame contains the null distribution for a single region set. The function can also convert in the reverse order from a list of null distributions to a list of COCOA results.

Usage

convertToFromNullDist(rsScoresList)

Arguments

rsScoresList

each item in the list is a data.frame, one item for each permutation with the results of that permutation. Each row in the data.frame is a region set. All data.frames should be the same size and each data.frame's rows should be in the same order

Value

a list of data.frames. If given a list where each item is a data.frame with results from one COCOA permutation, this function will return a list of data.frames where each data.frame contains the null distributions for a single region set. The output data.frames will have the same columns as the input data.frames. If given a list where each item is a data.frame with the null distribution/s for a single region set, this function will return a list where each item is a data.frame with one row for each region set (e.g. a data.frame with results for a single COCOA permutation).

Examples

# six region sets (rows), 2 signals (columns)
fakePermScores <- data.frame(abs(rnorm(6)), abs(rnorm(6)))
fakePermScores2 <- data.frame(abs(rnorm(6)), abs(rnorm(6)))
# 2 fake COCOA results (i.e. nPerm=2)
permRSScores <- list(fakePermScores, fakePermScores2)
convertToFromNullDist(permRSScores)

databio/COCOA documentation built on Sept. 1, 2023, 5:50 p.m.