read_merge_rcc: Merge multiple .rcc files

In calebclass/NanoTube: An Easy Pipeline for NanoString nCounter Data Analysis

Merge multiple .rcc files

Description

Read in multiple .rcc files named in the fileList and merge the expression data. This step is conducted within processNanostringData.

Usage

read_merge_rcc(fileList, includeQC = FALSE, logfile = "")

Arguments

fileList	a character vector of .rcc file names
includeQC	include merged QC data (from the "Lane Attributes" part of file) in the output? Default FALSE
logfile	a filename for the logfile (optional). If blank, will print warnings to screen.

Value

A list object including:

exprs	The expression matrix
dict	The gene dictionary
qc	QC metrics included in the .rcc files, if includeQC == TRUE

Examples

example_data <- system.file("extdata", "GSE117751_RAW", package = "NanoTube")

dat <- read_merge_rcc(list.files(example_data, full.names = TRUE))

calebclass/NanoTube documentation built on Nov. 21, 2023, 12:31 p.m.