MPSE: Construct a MPSE object

View source: R/AllClass.R

MPSER Documentation

Construct a MPSE object

Description

Construct a MPSE object

Usage

MPSE(
  assays,
  colData = NULL,
  otutree = NULL,
  taxatree = NULL,
  refseq = NULL,
  ...
)

Arguments

assays

A 'list' or 'SimpleList' of matrix-like elements All elements of the list must have the same dimensions, we also recommend they have names, e.g. list(Abundance=xx1, RareAbundance=xx2).

colData

An optional DataFrame describing the samples.

otutree

A treedata object of tidytree package, the result parsed by the functions of treeio.

taxatree

A treedata object of tidytree package, the result parsed by the functions of treeio.

refseq

A XStingSet object of Biostrings package, the result parsed by the readDNAStringSet or readAAStringSet of Biostrings.

...

additional parameters, see also the usage of SummarizedExperiment.

Value

MPSE object

Examples

set.seed(123)
xx <- matrix(abs(round(rnorm(100, sd=4), 0)), 10)
xx <- data.frame(xx)
rownames(xx) <- paste0("row", seq_len(10))
mpse <- MPSE(assays=xx)
mpse

xiangpin/MicrobiotaProcess documentation built on July 24, 2024, 11:44 p.m.