prospectrprospectr 0.2.6read_nircal(): non-utf characters in sample IDs are
properly handled (before some IDs were wrongly converted into
NAs).Non-UTF8 characters are now converted to their corresponding
codes.
Documentation is now compatible with HTML5.
prospectr 0.2.5kenStone(): an error in a sanity check that
prevented the function to run when the number of groups to be selected
was smaller than the total number of groups. This sanity check has been
fixed. Thanks to Pogs Manalili for reporting this (#41).
kenStone(): this function was failing when when
using the Mahalanobis distance on a matrix of one column. By default the
function transforms the matrix onto the Mahalanobis space using either
SVD or eigendecomposition. This makes sense for matrices with more than
two columns. However for a matrix of one column, we now assume that such
space is equivalent to the variable divided by the its standard
deviation. Thanks to Sergio Roldan (https://github.com/sdroldan) for
reporting this (#40).
spliceCorrection(): correcting more than one point
at once (argument splice) in the spectra was returning an error. This
was a bug introduced in version 0.2.4. Thanks to Jose Lucas Safanelli
(https://github.com/zecojls) for reporting this (#39).
prospectr 0.2.4baseline(): in some cases the function did not
properly capture the baseline confounding maximum values of a peaks as
part of the baseline. This has been addressed in this version by
ensuring the envelope used in the computation of the convex hull (used
to extract the baseline) is properly defined. At the edges, this
envelope has always values higher than any peak of the
spectrum.
read_nircal(): the function was wrongly identifying
actual .nir files as invalid. This preventing the function from reading
any nir file. This has been fixed.
prospectr 0.2.3The kenStone() function now includes a new feature
that allows to initialize the calibration sample search with a
user-defined subset of observations (which are to be included in the
final calibration subset). Thanks to Thorsten Behrens and Philipp
Baumann for suggesting this feature.
The gap-segment derivatives (gapDer()) function now
allows for high order derivatives. In previous versions the function
only allowed up to derivatives of 4th order, in this version the the
function accepts as derivative order any integer larger than 1.
binning()a bug in the creation of the binning groups
has been fixed. This bug is in fact inherited from a problem in the
findInterval() function. The breaks (given in the vec
arument) might get corrupted when they contain many decimal places.
These breaks (in vec) are used to define the final bins. The problem in
the binning function was that when a frequency variable
(e.g. wavelength) was exactly on the left of the bin range the variable
was assigned to the next bin. In some cases this lead to small
discrepancies in the in the computation of the mean of the
bins.
spliceCorrection() now accepts one or two values as
input for the splice argument. Previously it only accepted a vector of
length two. For example, now it corrrects for splice steps of spectra
that originates from spectrometers with two detectors (i.e. it corrects
for the potential abrupt transition betwteen the two
detectors).
An extra sanity check has been added to the
read_nircal() function. The function evaluaes whether it is
indeed a file properly produced by the BUCHI nircal software.
There was a bug in the filter for the 3rd order derivative in gap
segment derivative (gapDer()) function. One of the factors
in the filter had a wrong negative sign.
There was a bug in the read_nircal() function. It
emerged only in some files and prevented the function from reading the
Description field properly
msc() function the argument
reference_spc has been renamed to ref_spectrum
to emphasize that its input must be is a vector and not a matrix of
spectra.prospectr 0.2.2baseline()The package was stripping some symbols for Rcpp functions in Makevars in order to reduce the installation size of the package. Now these lines have been commented to comply with CRAN policies
standardNormalVariate() returns now a matrix
(previously a data.frame)
prospectr 0.2.1resample() also has a new argument
(...) to pass additional arguments to the
splinefun() function (of stats) used within
resample() when the argument
interpol = 'spline' (the default since version 0.2.0)read_nircal(), the description file was not
being properly readprospectr 0.2.0read_nircal()) for reading buchi NIRcal
files has been addedprospectr 0.1.4kenStone() and duplex() when
the group parameter is usedprospectr 0.1.3prospectr 0.1.2readASD() when ASD file version = 7.0spliceCorrection()prospectr 0.1.1shenkWest() when
rm.outlier = TRUEgapDer() when input is a data.frameprospectr 0.1