fitdistrplus 1.2-0
NEW FEATURES
- the
fitdistrplus git repo now belongs to the
lbbe-software organization
- modify or add a initial value for all univariate distributions
provided in
actuar.
- create a new vignette regarding default initial values.
- add of generic functions
AIC() and BIC()
for fitdist and fitdistcens objects.
- make
gofstat() work with fitdistcens
objects (giving only AIC and BIC values).
- add calculation of the hessian using
optimHess within
fitdist when it is not given by optim.
- compute the asymptotic covariance matrix with MME : Now the
theoretical moments
m<dist> should be defined up to
an order which equals to twice the maximal order given
order.
- add a new argument
calcvcov in order to (dis)able the
computation of covariance matrix for any method.
- graphics function
*comp() now return a list of drawn
points and/or lines when plotstyle == "graphics".
- add a
density function for bootdist(cens)
objects.
- add DOIs in man pages.
BUG FIXES
- when a
scale parameter was fixed, the
startarg function also set a rate parameter.
this leads to an error when calling the density.
- add further sanity check in
plotdistcens: the following
code
plotdistcens(data.frame(right=smokedfish$right, left=smokedfish$left))
raised an error via npsurv(), thanks to R. Pouillot.
- bug fixed in using
breaks in
plotdist.
- solve the extremely long time taking by
lines in
descdist.
- add defensive programming for input data (check
NA,
NaN, Inf values).
- remove the use of
plot.np in vignettes.
fitdistrplus 1.1-11
NEW FEATURES
- add a
print argument in the descdist
function to allow to only plot the skewness-kurtosis graph, without
printing the computed parameters
BUG FIX
- the use of some deprecated
ggplot2 functions is
updated
- the use of some deprecated BibTeX entries is updated
- bug fixed in drawing CI lines in
CIcdfcplot when
ggplot2 is called
- bug fixed in drawing horizontal lines in
cdfcompcens
fitdistrplus 1.1-8
WARNING FIX
- update an URL in fitdistrplus.Rd from to
- replace
if(class(x) == XX) by
if(inherits(x, XX))
- replace all
dontrun tags by donttest in
examples in rd files
BUG FIX
- fix an error in
t-detectbound.R producing “failure:
length > 1 in coercion to logical” reported by Brian Ripley
fitdistrplus 1.1-6
NEW FEATURES
- new function
Surv2fitdistcens() to format data for use
in fitdistcens() from a format used in the survival
package
- new dataset
fremale in order to illustrate
Surv2fitdistcens()
- support the use of ggplot2 for
CIcdfplot
- add the taxon names to the
endosulfan dataset
- new argument name.points in
cdfcomp and
CIcdfplot to add labels next to points
fitdistrplus 1.1-5
WARNING FIX
- reduce testing times in test files
fitdistrplus 1.1-3
NEW FEATURE
- take into account
fix.arg for uniform distribution
BUG FIXES
- add the loglikelihood value for uniform distribution (in
mledist())
- correct usage of triple dots argument in
llsurface()
- fix an error in
ppcomp() and qqcomp()
raised for large dataset
fitdistrplus 1.1-1
NEW FEATURES
- add of internal functions to cope with problems of lack of
maintenance of the package
npsurv and remove the dependence
to this package
- remove of the deprecated argument Turnbull of
plotdistcens()
fitdistrplus 1.0-14
NEW FEATURES
- add a new estimation method called maximum spacing estimation via
msedist()
fitdistrplus 1.0-13
BUG FIXES
- fix issues coming from the noLD (–disable-long-double) configuration
of R
fitdistrplus 1.0-12
BUG FIXES
- bug fixed in
qmedist() and fitdistcens()
which raised an error in checkparamlist().
- bug fixed in
testdpqfun() which assumes the first
argument of d,p,q,r functions are exactly the same as in base R.
fitdistrplus 1.0-11
NEW FEATURES
- update the FAQ with beta(a,a).
- improve graphics for discrete distributions in
denscomp().
- improve automatic naming of legends in
xxxcomp().
- harmonize outputs in
mledist(), qmedist(),
mmedist(), mgedist(), fitdist()
and fitdistcens().
- automatic test of d, p, q functions in
fitdist() and
raise warnings.
- improve test for starting and fixed values.
- add new default starting values for distributions in actuar.
- change of the default CDF plot for censored data, using the Wang
NPMLE algorithm provided in the package npsurv (in
plotdistcens() and cdfcompcens())
- add of two new goodness-of-fit plots (QQ-plot and PP-plot) for
censored data (cf.
plotdistcens, qqcompcens
and ppcompcens).
- add of a part dedicated to censored datain the FAQ vignette.
- homogeneization of
xlim and ylim default
definition in plotdistcens.
- Removing of the name of the first argument in calls to dpq functions
in order to make the package compatible with distributions defined with
a non classical name for their first argument (resp. x, q, p for d, p, q
functions).
- add the possibility to change the title of the CDF plot in
plotdistcens() using the argument main.
- support the use of ggplot2 for
cdfcompcens,
qqcompcens, ppcompcens.
BUG FIXES
- bug fixed concerning the use of gofstat with a chi squared df <=0
(error message blocking the other functions)
- bug fix in mledist() when bounds were set (so not NULL) for censored
MLE
- enable a correct use of non-equidistant breaks in denscomp for the
histogram when plotstyle = “ggplot”, and prohibit the use of
non-equidistant breaks with probability = FALSE (adding a stop in this
case).
fitdistrplus 1.0-9
- update the FAQ with linear inequality constraints.
fitdistrplus 1.0-8
NEW FEATURES
- support the use of ggplot2 for
cdfcomp,
denscomp, qqcomp, ppcomp.
BUG FIXES
- correct legend for
qqcomp and ppomp on
large data.
- correct weights in
mmedist.
- correct the name Akaike in
gofstat.
- correct the use of trueval in
plot.bootdist.
- correct the vignette on truncate (inflated) distributions.
fitdistrplus 1.0-7
NEW FEATURES
- keep the JSS vignette as a pdf.
- start the FAQ vignette and add datasets (?dataFAQ) for it.
- provide likelihood plot/surface/curve:
llplot,
llcurve, llsurface.
- provide parallelization of bootstrap in bootdist and
bootdistcens.
- provide graphic of (e)cdf with bootstraped confidence interval/area:
CIcdfplot.
- allow the use of
constrOptim() in mledist,
mmedist, mgedist, qmedist
functions.
- add a possible pre-fitting procedure: prefit.
BUG FIXES
- add invisible() for all graphical functions.
- bug fixed concerning the use of weights on censored data.
fitdistrplus 1.0-6
BUG FIXES
- automatic definition of starting values for distributions
llogis and invweibull is now working.
fitdistrplus 1.0-5
NEW FEATURES
- update starting/fixing values in
mledist,
mmedist, mgedist, qmedist
functions.
- update graphics for bootstrap procedure.
- add argument do.points in
cdfcomp.
- add argument weights in
mledist, qmedist,
mmedist, fitdist,
fitdistcens.
- add argument keepdata in
fitdist,
fitdistcens.
- suppress warnings/errors in fitdist(cens), bootdist(cens).
BUG FIXES
- defensive programming in
plotdist,
cdfcomp,…
- simplify plotting curves in
cdfcomp where seq(xmin,
xmax, by=1) was used.
fitdistrplus 1.0-4
- release for the JSS publication.
fitdistrplus 1.0-3
NEW FEATURES
- new generic functions for fitdist(cens):
loglik,
vcov and coef.
- vignette updated to the version of a paper accepted by the Journal
of Statistical Software.
- add of an argument discrete in fitdist in order to be able to take
into account non classical discrete distributions while plotting the fit
with plot.fitdist or cdfcomp and while calculating goodness-of-fit
statistics with gofstat (add of an example : fit of a zero inflate
Poisson distribution).
- add of an S3 class for
descdist and a print
method.
BUG FIXES
- fitdist can handle non invertible Hessian matrices.
fitdistrplus 1.0-2
NEW FEATURES
- plotdist can plot empirical density as an histogram, a density plot
or both superimposed.
- a strong warning was added to the documentation of function descdist
about the problematic high variance of skewness and kurtosis.
BUG FIXES
- bug fixed in
bootdistcens : argument fix.arg is now
correctly passed to mle.
fitdistrplus 1.0-1
NEW FEATURES
- gofstat can handle multiple
fitdist objects.
- plotdist for discrete data is slightly enhanced.
fitdistrplus 1.0-0
NEW FEATURES
- update cdfcomp and add denscomp, ppcomp and qqcomp functions.
- add of an argument Turnbull.confint to functions plotdistcens and
cdfcompcens in order to draw confidence intervals on the empirical
distribution only if requested.
- ppoints now used in “fitdist” for QQ plot, PP plot and cdf plot for
continuous data (was used only for QQ plot in previous versions) to
enable Blom type plotting position (using by default Hazen plotting
position than can be chanfge using arguments use.ppoints and
a.ppoints)
- many changes in the examples given in the reference manual.
- the vignette was removed, to be transformed in a paper that we will
soon submit to a journal.
- add of four data sets :
fluazinam,
salinity, danishuni and
danishmulti.
- add of functions to calculate quantiles of the fitted distribution,
with 95 percent CI calculated by bootstrap : quantile generic function
is available both for
fitdist and bootdist
objects and quantile generic function is available both for
fitdistcens and bootdistcens objects.
BUG FIXES
- correction the formula for the CvM test for Weibull
distribution.
- elimination of CvM and AD tests for normal, lognormal and logistic
distributions : formulas previously used (given by Stephens 1986) do not
use exactly MLE estimates and thus results were only approximates.
- make arguments xlim and ylim functional in
cdfcompcens.
- bug fix in the closed formula in
mmedist for lognormal
distributions.
fitdistrplus 0.3-4
NEW FEATURES
- posibility to fix xlegend to a keyword
(e.g.
bottomright) in cdfcomp and
cdfcompdens.
- improvement of the new vignette.
BUG FIXES
- correction of the NAMESPACE file in order to enable the correct
print of a summary of a
fitdistcens object (with the
correlation matrix, the loglikelihood and AIC and BIC statistics).
fitdistrplus 0.3-3
NEW FEATURES
- a new function (
cdfcompcens) to plot cumulative
distributions corresponding to various fits using a same censored data
set.
- add an example with scaling problem in man pages.
fitdistrplus 0.3-2
NEW FEATURES
- new plot of the empirical cdf curve in
plotdistcens,
using the Turnbull algorithm by a call to function
survfit{survival}.
- new arguments to function
cdfcomp : verticals,
horizontals and xlim.
fitdistrplus 0.3-1
NEW FEATURES
- add of a draft of a new version of the vignette.
fitdistrplus 0.3-0
NEW FEATURES
- a new function (
cdfcomp) to plot cumulative
distributions corresponding to various fits using a same non censored
data set.
- add of two data sets :
endosulfan and
toxocara.
fitdistrplus 0.2-2
BUG FIXES
- elimination of NON-ASCII characters in the vignette.
fitdistrplus 0.2-1
NEW FEATURES
- a new fitting method was implemented for continuous distributions :
the maximum goodness-of-fit estimation (function
mgedist)
(for the moment only available for non censored data).
fitdistrplus 0.1-5
NEW FEATURES
- a new goodness-of-fit statistic was added in
gofstat,
with corresponding test : the Cramer-von Mises distance.
- a new fitting method has been implemented : the quantile matching
estimation (function
qmedist). For the moment, only
available for non censored data.
- the moment matching estimation has been extended (in function
mmedist) to enable numerical matching when closed formula are not
available.
BUG FIXES
- correction of a bug inserted while adding the argument
fix.arg which prevent the print of the results of
goodness-of-fit tests.
fitdistrplus 0.1-4
NEW FEATURES
- a component named dots added to the list returned by
fitdist and fitdistcens in order to pass
optional arguments for the control of optimization in
mledist to bootdist and
bootdistcens. bootdist and
bootdistcens changed to take into account these optional
arguments if they are defined in the call to fitdist or
fitdistcens.
- an argument added to
fitdist, fitdistcens
and mledist, named fix.arg, and giving the
possibility to fix some of the distribution parameters while maximizing
the likelihood. Functions bootdist, bootdistcens and gofstat were also
changed in order to take this new argument into account.
- a new data file of bacterial contamination censored data extracted
from Busschaert et al. 2000 and examples corresponding to analysis of
this dataset.
BUG FIXES
- correction of a bug in the print and the plot of bootstraped samples
using
bootdist or bootdistcens when there was
only one parameter estimated by maximum likelihood.
fitdistrplus 0.1-3
NEW FEATURES
- new data file
groundbeef (groundbeef.rda and
groundbeef.Rd) and new use of this dataset in some examples.
- new function
gofstat. Goodness-of-fit statistics are no
more computed by fitdist but may computed and printed by the use of the
function gofstat. In this new function, the whole results computed are
not printed : results of tests are printed only if the argument
print.test==TRUE and for continuous distributions only Anderson-Darling
and Kolomogorov-Smirnov statistics are printed by default (but complete
results are returned by gofstat).
- modifications in
descdist : three arguments were added
in descdist 1/ method, to choose between unbiased estimations of
standard deviation, skewness and kurtosis (default choice) and sample
values. 2/ obs.col to choose the color used to plot the observed point
on the graph. 3/ boot.col to choose the color used to plot the bootstrap
sample of points on the graph.
- modifications in
plotfit : minor changes were performed
in order to facilitate the use of the argument … to personnalize the
plots (see examples in plotdist.Rd)
- modication of the vignette
BUG FIXES
- correction of a bug in
plotdist due to the redefinition
in the previous version of the parameter “ylim” for the plot of a
histogram with theoretical density function (there was a problem with
infinite values of theoretical density function).
fitdistrplus 0.1-2
NEW FEATURES
- deletion of mledistcens and modification of mledist in order to
maximize likelihood for both censored and non censored data.
- possibility to choose the optimization method used for maximum
likelihood estimation (MLE) of distribution parameters using the new
argument “optim.method” of mledist.
- possibility to specify contraints on distribution parameters using
the new arguments “lower” and “upper” of mledist.
- possibility to use a custom optimization function for MLE using the
new argument “custom.optim”.
- moment matching estimation is no longer done with argument method
set to “mom” but set to “mme” in fitdist.
- renaming of momdist in mmedist.
- calculation of AIC and BIC criterion after maximum likelihood
estimation of distribution parameters
- change of the default number of iterations from 999 to 1001 for
bootstrap in order to avoid interpolation using the quantile
function
- use of the argument “log” and (resp. “log.p”) of density (resp.
distribution) when available to compute the loglikelihood.
BUG FIXES
- omitting the name of the first argument in calls to the density
function during maximization of the likelihood in order to enable the
use of a density function defined with a first parameter (the vector of
quantiles) with a name differing from “x” (classical name for density
distributions defined in R), such as the density function dexGAUS from
the package gamlss.dist.
fitdistrplus 0.1-1