simulate2MRexperiment: Convert simulated output to MRexperiment object

In microbiomeDASim: Microbiome Differential Abundance Simulation

Description

In order to allow investigators to more easily incorporate simulated data, this package converts the raw output into an MRexperiment object used in the metagenomeSeq package.

Usage

simulate2MRexperiment(obj, missing = FALSE)

Arguments

obj	output from either gen_norm_microbiome or mvrnorm_sim
missing	logical indicator for objects from mvrnorm_sim. If missing = TRUE then create MRexperiment object with Y_obs else use Y.

Value

An MRexperiment object

Examples

bug_gen <- gen_norm_microbiome(features=6, diff_abun_features=3,
                               n_control=30, n_treat=20, control_mean=2,
                               sigma=2, num_timepoints=4, t_interval=c(0, 3),
                               rho=0.9, corr_str="compound", func_form="M",
                               beta=c(4, 3), IP=c(2, 3.3, 6),
                               missing_pct=0.2, missing_per_subject=2,
                               miss_val=0, asynch_time=TRUE)
bug_gen_MR <- simulate2MRexperiment(bug_gen)
class(bug_gen_MR)

microbiomeDASim documentation built on Nov. 8, 2020, 10:58 p.m.