Description Usage Arguments Details Author(s) See Also Examples
Firstly, hyperSpec objects can be imported and exported as ASCII files.
Besides save
and load
, two general ways to import and
export data into hyperSpec
objects exist.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | read.txt.long(file = stop("file is required"), cols = list(.wavelength =
expression(lambda/nm), spc = "I / a.u."), header = TRUE, ...)
read.txt.wide(file = stop("file is required"), cols = list(spc = "I / a.u.",
.wavelength = expression(lambda/nm)), sep = "\t", row.names = NULL,
check.names = FALSE, ...)
write.txt.long(object, file = "", order = c(".rownames", ".wavelength"),
na.last = TRUE, decreasing = FALSE, quote = FALSE, sep = "\t",
row.names = FALSE, cols = NULL, col.names = TRUE, col.labels = FALSE,
append = FALSE, ...)
write.txt.wide(object, file = "", cols = NULL, quote = FALSE,
sep = "\t", row.names = FALSE, col.names = TRUE, header.lines = 1,
col.labels = if (header.lines == 1) FALSE else TRUE, append = FALSE, ...)
|
file |
filename or connection |
cols |
the column names specifying the column order. For data import, a list with elements |
header |
the file has (shall have) a header line |
... |
arguments handed to |
check.names |
handed to |
object |
the |
order |
which columns should be |
na.last |
handed to |
decreasing |
logical vector giving the sort order |
quote,sep,col.names,row.names |
have their usual meaning (see
For file import, |
col.labels |
Should the column labels be used rather than the colnames? |
append |
Should the output be appended to an existing file? |
header.lines |
Toggle one or two line header (wavelengths in the
second header line) for |
A second option is using the package R.matlab
which
provides the functions readMat
and
writeMat
.
hyperSpec comes with a number of pre-defined functions to import
manufacturer specific file formats. For details, see vignette
("file-io")
.
read.spc
imports Thermo Galactic's .spc file
format, and ENVI files may be read using
read.ENVI
.
These functions are very flexible and provide lots of arguments.
If you use them to read or write manufacturer specific ASCII formats,
please consider writing a wrapper function and contributing this function
to hyperSpec. An example is in the “flu” vignette (see
vignette ("flu", package = "hyperSpec"
).
Note that R accepts many packed formats for ASCII files, see
connections
. For .zip files, see
unzip
.
For further information, see the examples below and the documentation of
R.matlab
.
Firstly, hyperSpec objects can be imported and exported as ASCII files.
A second option is using the package R.matlab
which provides the functions readMat
and
writeMat
.
hyperSpec comes with a number of pre-defined functions to import
manufacturer specific file formats. For details, see vignette
("fileio")
.
read.spc
imports Thermo Galactic's .spc file
format, and ENVI files may be read using
read.ENVI
.
These functions are very flexible and provide lots of arguments.
If you use them to read or write manufacturer specific ASCII formats,
please consider writing a wrapper function and contributing this
function to hyperSpec. An example is in the “flu” vignette
(see vignette ("flu", package = "hyperSpec"
).
Note that R accepts many packed formats for ASCII files, see
connections
. For .zip files, see unzip
.
For further information, see the examples below, vignette ("fileio")
and the documentation
of R.matlab
.
C. Beleites
R.matlab
for .mat files
read.ENVI
for ENVI data
read.spc
for .spc files
Manufacturer specific file formats: scan.txt.Renishaw
vignette ("fileio")
and http://hyperspec.r-forge.r-project.org/blob/fileio.pdf,
respectively
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 | ## Not run: vignette ("file-io")
## export & import matlab files
if (require (R.matlab)){
# export to matlab file
writeMat ("test.mat", x = flu[[]], wavelength = flu@wavelength,
label = lapply (flu@label, as.character))
# reading a matlab file
data <- readMat ("test.mat")
print (data)
mat <- new ("hyperSpec", spc = data$x,
wavelength = as.numeric(data$wavelength),
label = data$label[,,1])
}
## ascii export & import
write.txt.long (flu, file = "flu.txt", cols = c(".wavelength", "spc", "c"),
order = c("c", ".wavelength"),
decreasing = c(FALSE, TRUE))
read.txt.long (file = "flu.txt", cols = list (.wavelength = expression (lambda / nm),
spc= "I / a.u", c = expression ("/" (c, (mg/l)))))
write.txt.wide (flu, file = "flu.txt", cols = c("c", "spc"),
col.labels = TRUE, header.lines = 2, row.names = TRUE)
write.txt.wide (flu, file = "flu.txt", col.labels = FALSE, row.names = FALSE)
read.txt.wide (file = "flu.txt",
cols = list (c=expression ("/"("c", "mg/l")), spc="I / a.u", .wavelength = "lambda / nm"),
header = TRUE)
|
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