| getNormalizedOTUdata {MCMC.OTU} | R Documentation |
Extracts mcmc.otu model predictions
Description
Generates a table of model-derived log2-transformed OTU abundances without sample effects (i.e., corresponding to predicted normalized data)
Usage
getNormalizedOTUdata(model, data, log.base=10)
Arguments
model |
mcmc.otu model: the output of mcmc.otu function fitted with pr=TRUE option |
data |
The dataset that was analysed to generate the model (output of otuStack function) |
log.base |
base of the logarithm to use |
Value
The function returns a list of two data frames. The first one, normData, is the model-predicted log2-transformed OTU abundances table. It has one column per OTU and one row per sample. The second data frame, conditions, is a table of experimental conditions corresponding to the normData table.
Author(s)
Mikhail V. Matz, University of Texas at Austin <matz@utexas.edu>
References
Elizabeth A. Green, Sarah W. Davies, Mikhail V. Matz, Monica Medina Next-generation sequencing reveals cryptic Symbiodinium diversity within Orbicella faveolata and Orbicella franksi at the Flower Garden Banks, Gulf of Mexico. PeerJ 2014 https://peerj.com/preprints/246/