append.gdsn: Append data to a specified variable

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

Append data to a specified variable

Description

Append new data to the data field of a GDS node.

Usage

append.gdsn(node, val, check=TRUE)

Arguments

node	an object of class gdsn.class
val	R primitive data, like integer; or an object of class gdsn.class
check	whether a warning is given, when appended data can not match the capability of data field; if val is character-type, a warning will be shown if there is any NA in val

Details

storage.mode(val) should be "integer", "double", "character" or "logical". GDS format does not support missing characters NA, and any NA will be converted to a blank string "".

Value

None.

Author(s)

Xiuwen Zheng

See Also

read.gdsn, write.gdsn, add.gdsn

Examples

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

# commom types
n <- add.gdsn(f, "int", val=matrix(1:10000, nrow=100, ncol=100),
    compress="ZIP")

# no warning, and add a new column
append.gdsn(n, -1:-100)
f

# a warning
append.gdsn(n, -1:-50)
f

# no warning here, and add a new column
append.gdsn(n, -51:-100)
f

# you should call "readmode.gdsn" before reading, since compress="ZIP"
readmode.gdsn(n)

# check the last column
read.gdsn(n, start=c(1, 102), count=c(-1, 1))


# characters
n <- add.gdsn(f, "string", val=as.character(1:100))
append.gdsn(n, as.character(rep(NA, 25)))

read.gdsn(n)


# close the GDS file
closefn.gds(f)


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

zhengxwen/gdsfmt documentation built on Sept. 27, 2024, 10:08 a.m.