SeqOpen: Open the gds file in SeqSQC objects.

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

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)

SeqSQC documentation built on Nov. 8, 2020, 5:03 p.m.