objdesp.gdsn: Variable description

In zhengxwen/gdsfmt: R Interface to CoreArray Genomic Data Structure (GDS) Files

Variable description

Description

Get the description of a GDS node.

Usage

objdesp.gdsn(node)

Arguments

node	an object of class gdsn.class, a GDS node

Value

Returns a list:

name	the variable name of a specified node
fullname	the full name of a specified node
storage	the storage mode in the GDS file
trait	the description of data field, like "Int8"
type	a factor indicating the storage mode in R: Label – a label node, Folder – a directory, VFolder – a virtual folder linking to another GDS file, Raw – raw data (addfile.gdsn), Integer – integers, Factor – factor values, Logical – logical values (FALSE, TRUE and NA), Real – floating numbers, String – characters, Unknown – unknown type
is.array	indicates whether it is array-type
is.sparse	TRUE, if it is a sparse array
dim	the dimension of data field
encoder	encoder for compressed data, such like "ZIP"
compress	the compression method: "", "ZIP.max", etc
cpratio	data compression ratio, NaN indicates no compression
size	the size of data stored in the GDS file
good	logical, indicates the state of GDS file, e.g., FALSE if the virtual folder fails to link the target GDS file
hidden	logical, TRUE if it is a hidden object
message	if applicable, messages of the GDS node, such like error messages, log information
param	the parameters, used in add.gdsn, like "maxlen", "offset", "scale"

Author(s)

Xiuwen Zheng

See Also

cnt.gdsn, name.gdsn, ls.gdsn, index.gdsn

Examples

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

# add a vector to "test.gds"
node1 <- add.gdsn(f, name="vector1", val=1:10000)
objdesp.gdsn(node1)

# add a vector to "test.gds"
node2 <- add.gdsn(f, name="vector2", val=1:10000, compress="ZIP.max",
    closezip=FALSE)
objdesp.gdsn(node2)

# add a character to "test.gds"
node3 <- add.gdsn(f, name="vector3", val=c("A", "BC", "DEF"),
    compress="ZIP", closezip=TRUE)
objdesp.gdsn(node3)

# close the GDS file
closefn.gds(f)


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

zhengxwen/gdsfmt documentation built on April 11, 2024, 3:19 a.m.