SeqOpen: Open the gds file in SeqSQC objects.

In Liubuntu/SeqSQC: A bioconductor package for sample quality check with next generation sequencing data

Open the gds file in SeqSQC objects.

Description

Function to open the gds file inside the SeqSQC object.

Usage

SeqOpen(seqfile, readonly = TRUE, allow.duplicate = FALSE)

Arguments

seqfile	SeqSQC object, which has been merged with benchmark data.
readonly	whether to open the gds file in read-only mode. If "FALSE", it is allowed to write data to the file. The default is TRUE.
allow.duplicate	whether to allow to open a GDS file with read-only mode when it has been opened in the same R session. The default is FALSE.

Value

a gds file with the filepath in the input SeqSQC object.

Author(s)

Qian Liu [e-mail]

Examples

library(gdsfmt)
load(system.file("extdata", "example.seqfile.Rdata", package="SeqSQC"))
gfile <- system.file("extdata", "example.gds", package="SeqSQC")
seqfile <- SeqSQC(gdsfile = gfile, QCresult = QCresult(seqfile))
dat <- SeqOpen(seqfile)
dat
closefn.gds(dat)

Liubuntu/SeqSQC documentation built on April 12, 2024, 6:39 p.m.