areaPermutation: Calculate Area Ratio (AR) of each feature's time interval for...

In MetaLonDA: Metagenomics Longitudinal Differential Abundance Method

Description

Fits longitudinal samples from the same group using negative binomial or LOWESS for all permutations

Usage

areaPermutation(perm)

Arguments

perm	list has all the permutated models

Value

returns a list of all permutation area ratio

References

Ahmed Metwally ([e-mail])

Examples

data(metalonda_test_data)
n.sample = 5 # sample size;
n.timepoints = 10 # time point;
n.perm = 3
n.group= 2 # number of group;
Group = factor(c(rep(0,n.sample*n.timepoints), rep(1,n.sample*n.timepoints)))
Time = rep(rep(1:n.timepoints, times = n.sample), 2)
ID = factor(rep(1:(2*n.sample), each = n.timepoints))
points = seq(1, 10, length.out = 10)
aggretage.df = data.frame(Count = metalonda_test_data[1,], Time = Time, Group = Group, ID = ID)
perm = permutation(aggretage.df, n.perm = 3, method = "nbinomial", points)
areaPermutation(perm)

MetaLonDA documentation built on Dec. 18, 2019, 9:38 a.m.