----- Forwarded message from Chris Klingenberg <c...@manchester.ac.uk> -----
Date: Mon, 21 Apr 2014 12:52:55 -0400
From: Chris Klingenberg <c...@manchester.ac.uk>
Reply-To: Chris Klingenberg <c...@manchester.ac.uk>
Subject: MorphoJ update
To: morphmet@morphometrics.org
Dear morphometricians
I have just uploaded the new version 1.06b of MorphoJ to the web site.
As usual, the program can be downloaded from the MorphoJ web page:
http://www.flywings.org.uk/MorphoJ_page.htm
This release contains a bug fix in the test for hypotheses of modularity
(Modularity: Evaluate Hypothesis). The bug concerned the option to
compute random partitions of the landmarks into spatially contiguous
subsets. The algorithm for this particular option in previous versions
contained a bug that led to erroneous sets of partitions and thus
distributions of RV coefficients (for very large numbers of random
partitions, this distribution did not necessarily approximate the
distribution for the full enumeration of partitions). In the present
version, this algorithm has been replaced by a simpler one that does not
contain this error. However, the simpler algorithm will check for many
more partitions of landmarks whether they are spatially contiguous or
not. If there are many subsets of landmarks or if the adjacency graph is
weakly connected (relatively few edges by comparison with the number of
landmarks), the algorithm can take a lot of computation time. In this
situation, consider to use a smaller number of random partitions first
to see how long it takes. Adding further links to the adjacency graph
will help to speed up computaions.
For the same procedure, a minor addition is a new item in the pop-up
menu for the diagrams with the distribution of RV coefficients. This new
command allows the user to change the size of the arrow that indicates
the RV coefficient for the hypothesis of modularity.
A minor bug was fixed in the program that imports phylogenies from Nexus
files (Import Phylogeny File). In the new version, all underscores in
taxon and node names are converted to spaces already in the initial
import of the Nexus file. This corresponds to the rule for Nexus files,
and the change therefore ensures that MorphoJ handles taxon names in the
way other programs do (or at least should).
Some further bugs related to phylogenies were also fixed, affecting the
permutation test and graphical output when the symmetric component of
centroid size (left-right averages for structures with matching
symmetry) is mapped onto a phylogeny.
Best wishes,
Chris
--
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Christian Peter Klingenberg
Faculty of Life Sciences
University of Manchester
Michael Smith Building
Oxford Road
Manchester M13 9PT
United Kingdom
Web site: http://www.flywings.org.uk
E-mail: c...@manchester.ac.uk
Phone: +44 161 2753899
Skype: chris_klingenberg
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----- End forwarded message -----
