summarize.rpa: RPA summarization

In RPA: RPA: Robust Probabilistic Averaging for probe-level analysis

Description

Probeset summarization with RPA for taxonomic data.

Usage

summarize.rpa(taxonomy, level, probedata, verbose = TRUE,
  probe.parameters = NULL)

Arguments

taxonomy	oligo - phylotype matching data.frame
level	taxonomic level for the summarization.
probedata	preprocessed probes x samples data matrix in absolute domain
verbose	print intermediate messages
probe.parameters	Optional. If probe.parameters are given, the summarization is based on these and model parameters are not estimated. A list. One element for each probeset with the following probe vectors: affinities, variances

Value

List with two elements: abundance.table (summarized data matrix in absolute scale) and probe.parameters (RPA probe level parameter estimates)

Author(s)

Contact: Leo Lahti [e-mail]

References

See citation("microbiome")

RPA documentation built on Nov. 8, 2020, 7:47 p.m.