readex.gdsn: Read data field of a GDS node with a selection

In gdsfmt: R Interface to CoreArray Genomic Data Structure (GDS) files

Description

Get data from a GDS node with subset selection.

Usage

readex.gdsn(node, sel=NULL, simplify=c("auto", "none", "force"), .useraw=FALSE)

Arguments

node	an object of class gdsn.class, a GDS node
sel	a list of m logical vectors, where m is the number of dimensions of node and each logical vector should have the same size of dimension in node
simplify	if "auto", the result is collapsed to be a vector if possible; "force", the result is forced to be a vector
.useraw	use R RAW storage mode if integers can be stored in a byte, to reduce memory usage

Value

Return an array.

Author(s)

Xiuwen Zheng

References

http://github.com/zhengxwen/gdsfmt

See Also

read.gdsn, append.gdsn, write.gdsn, add.gdsn

Examples

# cteate a GDS file
f <- createfn.gds("test.gds")

add.gdsn(f, "vector", 1:128)
add.gdsn(f, "matrix", matrix(as.character(1:(10*6)), nrow=10))
f

# read vector
readex.gdsn(index.gdsn(f, "vector"), sel=rep(c(TRUE, FALSE), 64))

# read matrix
readex.gdsn(index.gdsn(f, "matrix"))
readex.gdsn(index.gdsn(f, "matrix"),
	sel=list(d1=rep(c(TRUE, FALSE), 5), d2=rep(c(TRUE, FALSE), 3)))

# close the GDS file
closefn.gds(f)


# delete the temporary file
unlink("test.gds", force=TRUE)

gdsfmt documentation built on May 2, 2019, 4:41 p.m.