se_addpheno: Append phenotype data to a SummarizedExperiment object
In metamaden/rmpipeline: Process DNAm array IDATs into database files

se_addpheno

R Documentation

Append phenotype data to a SummarizedExperiment object

Description

Append phenotype data to a SummarizedExperiment object. Note, this data should be a data.frame with certain data specified by colnames "basename" and "gsm".

Usage

se_addpheno(phenopath, se, pdat = NULL, verbose = TRUE)

Arguments

`verbose`	Whether to show verbose status messages (default TRUE).
`version`	The data file version
`ts`	Data file NTP timestamp (integer)
`dbn`	Name of h5 file to load data matrices from.
`fnstem`	File name stem for new H5SE file
`dsnv`	Vector of the data set file names to read from h5 file.
`dsn.md`	Name of metadata file in h5 file.
`addmd`	Whether to add sample metadata.
`mdpath`	External path to sample metadata. If FALSE, looks for dsn.md in the dbn h5 file.
`dsn.rnv`	Vector for rownames datasets for dsnv sets.
`dsn.cnv`	Vector of colnames datasets for dsnv sets.
`semd`	H5SE object metadata information.