Colleagues,
I am very excited to announce the release of geomorph 3.0. This version
represents an entire rewrite of the analytical functions and their underlying
support code, which has resulted in improved speed, performance, and
flexibility of the package. We are especially grateful to those who served as
beta-testers prior to release, and who identified potential problems, and
provided many useful suggestions.
Geomorph 3.0 has many new features that may be of interest to our users. This
includes a suite of modularity and integration functions, new test statistics
for some analyses, an option to use nested effects in ANOVA, a data frame
generation function to ensure input data compatibility, as well as new plotting
options.
Geomorph 3.0 is intended to function in much the same manner as the base-R
package. Thus, one now runs an analysis, views results via 'summary()' and
obtains plots via 'plot()'; rather than having all output including plots
produced automatically. Additionally, each analytical function produces both
primary and supplementary output, which may be accessed via the list produced
by that particular function. As a result of these changes, users will notice
that some options are no longer required: e.g., 'verbose =' and 'ShowPlot ='
have been eliminate from the analytical functions, and the input parameters for
a few functions have changed slightly. Please be aware of this, as older
scripts calling 'verbose' and 'ShowPlot' in particular will need to be
adjusted. As before, changes to geomorph 3.0 are documented in both the News
file and in the help files for the individual functions. We suggest that users
consult these documents for specific instructions on how to run various
analyses (all analytical functions have R-code examples to provide additional
guidance).
To obtain geomorph 3.0 one may install the package from CRAN, or from our
Github repository. However, we strongly recommend installing from Github, as
any bug fixes or updates will be made immediately on Git, whereas the CRAN
version will only be updated every few months as per CRAN policies.
Additionally, some of the dependent packages called by geomorph have just been
eliminated in the Git version, which should facilitate installation geomorph.
Installing from github is accomplished via:
devtools::install_github("geomorphR/geomorph", ref="Stable")
Note: first time users will need to install the 'devtools' package, and may
need to install Rtools prior to geomorph. The latter may be found at:
https://cran.rstudio.com/bin/windows/Rtools/ . Additional installation
instructions may be found on our blogsite: geomorphpackage.blogspot.com/
As always, our goal with geomorph is to provide users with the latest
analytical procedures based on the current theory of the field. We hope that
geomorph provides researchers a flexible toolkit for the ever-expanding and
exciting diversity of applications we are seeing in the geometric morphometric
community! Comments and suggestions for improvement may be made via our blog
page (www.geomorphpackage.blogspot.com), or from emails directly to us. We
welcome these suggestions as we consider how to enhance geomorph moving forward.
Best regards,
Dean and the geomorph team
Dr. Dean C. Adams
Professor
Department of Ecology, Evolution, and Organismal Biology
Department of Statistics
Iowa State University
www.public.iastate.edu/~dcadams/<http://www.public.iastate.edu/~dcadams/>
phone: 515-294-3834
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MORPHMET may be accessed via its webpage at http://www.morphometrics.org
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