Articles by Emma Sherratt

Geomorph update 2.1.7 Now Available!

September 28, 2015 | 0 Comments

Geomorph users,We have uploaded version 2.1.7 of geomorph to CRAN. The windows binaries have been compiled and the tarball is available. However, subsequent to this, we found that under certain input scenarios, some of the changes we made to underlying support code had undesirable outcomes. We have corrected these issues ... [Read more...]

Geomorph update 2.1.6 Now Available!

June 25, 2015 | 0 Comments

Geomorph users,We have uploaded version 2.1.6 of geomorph* to CRAN. The windows and mac binaries have been compiled and the tarball is available.New Features:New globalIntegration() function for evaluating integration vs. self-similarity... [Read more...]

Tips & Tricks 9: Shape Changes and Hypothetical Shapes

June 18, 2015 | 0 Comments

Geomorph users,This month's tips and tricks was prompted by a user email from Tim Astrop, thanks Tim!How can I create a hypothetical shape representing a point in shape space?Today we will use some relatively simple R code to create a shape based on position in a Principal ... [Read more...]

Geomorph update 2.1.5 Now Available!

May 24, 2015 | 0 Comments

Geomorph users,We have uploaded version 2.1.5 of geomorph* to CRAN. The windows and mac binaries have been compiled and the tarball is available.New Features:New Auto Mode allows users to include pre-digitized landmarks added to build.te... [Read more...]

Geomorph beta in development (2.1.5)

May 3, 2015 | 0 Comments

Dear geomorph users,We've been busy adding some new functions to the forthcoming v.2.1.5, currently in beta stage and available on gitHub (installed using: devtools::install_github("EmSherratt/geomorph",ref = "Develop")). Users be aware that ... [Read more...]

Geomorph update 2.1.4 Now Available!

April 4, 2015 | 0 Comments

Geomorph users,We have uploaded version 2.1.4 of geomorph to CRAN. The windows and mac binaries have been compiled and the tarball is available*.Small Changes:warpRefMesh() generalised - now takes a mesh3d object (i.e. made from read.ply()) rather... [Read more...]

Tips & Tricks 8: Examining Replicate Error

April 4, 2015 | 0 Comments

Geomorph users,When starting out in a geometric morphometrics study, the common questions are ones of repeatability and measurement error.How much of the variation in the Procrustes residuals is due to human (digitizing) error? How much is du... [Read more...]

Geomorph and Multivariate Datasets

March 25, 2015 | 0 Comments

Did you know that geomorph is not just for landmark-based geometric morphometric (shape) data?We are committed to providing statistical tools for multivariate AND multidimensional morphometric data.As laid out in the recent series of papers on Phylogenetic Comparative Methods for high-dimensional data (Adams 2014a, Adams 2014b, Adams 2014c, Adams & ... [Read more...]

News So Far for Geomorph v2.1.4beta

March 23, 2015 | 0 Comments

Dear geomorph users,we have so far recognised and fixed the following bugs known to be in geomorph v.2.1.3 on CRAN, and these are available in the GitHub repository of v.2.1.4beta:  BUG FIXES    Corrected error readland.tps() "Error... [Read more...]

Tips & Tricks 7: Plotting PCA with TPS grids

March 19, 2015 | 0 Comments

Geomorph users,Our function plotTangentSpace() performs a Principal Components Analysis (PCA) of shape variation and plots two dimensions of tangent space for a set of Procrustes-aligned specimens and also returns the shape cha... [Read more...]

Installing Geomorph and R by Source

March 16, 2015 | 0 Comments

Since we started having a beta version of geomorph on GitHub, we understand that installation has become a little bit more complex. We were also aware of the issues for Mac Snow Leopard users.I have written a detailed summary of how to install geomorph... [Read more...]

Tips & Tricks 6: Exploring Data for Outliers

February 17, 2015 | 0 Comments

Geomorph users,A new function in geomorph 2.1.3 allows the user to explore Procrustes superimposed data for outliers (plotOutliers). Here I shall provide a few example for loops to demonstrate how you can explore your data for outliers prior to analyse... [Read more...]

Geomorph update 2.1.3 Now Available!

February 17, 2015 | 0 Comments

Geomorph users,We have uploaded version 2.1.3 to CRAN. The windows and mac binaries have been compiled and the tarball is available.NOTE: Version 2.1.3 has a small bug in readland.tps()that unfortunately slipped through the cracks. So yo... [Read more...]

Geomorph To Feature At SVP 2015

February 10, 2015 | 0 Comments

Calling Palaeontology-based Morphometricians,I am pleased to announce that myself, along with Aki Watanabe and Marc Jones will be leading a Symposium and associated workshop on Geometric Morphometrics in Paleontology at the Annual Meeting for the Society of Vertebrate Paleontology in Dallas Texas October 2015.Podium Symposium: The Shape of Things ... [Read more...]

Tips & Tricks 5: Extracting Classifiers Using Substring

November 20, 2014 | 0 Comments

Today's exercise in another easy one, and is inspired by a question from Ariel Marcy of University of Queensland.Exercise 5 - How to extract classifiers from names of specimens.Well-organised morphometricians will have a consistent naming system for th... [Read more...]

Geomorph update 2.1.2 Now Available!

November 20, 2014 | 0 Comments

Geomorph users,We have uploaded version 2.1.2 to CRAN. The windows and mac binaries have been compiled and the tarball is available.Version 2.1.2 comes with some small changes and new features: New functions advanced.procD.lm()for statis... [Read more...]

Geomorph update 2.1.1 now available!

July 21, 2014 | 0 Comments

Geomorph users,We have uploaded version 2.1.1 to CRAN. The windows and mac binaries have been compiled and the tarball is available.Version 2.1.1 contains small updates and fixes a few small bugs.New Feature: Specimens can now be rotated... [Read more...]

Tips & Tricks 4: Reading In Data Files

July 10, 2014 | 0 Comments

Today's exercise is another nice and simple one, and allows you to get used to manipulating datasets in R.Exercise 4 - How to read a file of coordinate data into R and make sure it is numeric.Reading your data files into R  for anal... [Read more...]

Free Geometric Mophometrics – a Summary

June 18, 2014 | 0 Comments

I have seen a few questions floating around the interwebs recently from people starting up in morphometrics and wondering what is the best software to use. I am inspired by my fellow 3D expert Dr. Peter Falkingham's blog post on free sof... [Read more...]

Geomorph 2.1 Now Available!

June 2, 2014 | 0 Comments

Geomorph users,We have uploaded version 2.1 to CRAN. The windows and mac binaries have been compiled and the tarball is available.Version 2.1 comes with some small changes and new features: Mike Collyer has now officially joined the geomorph ... [Read more...]
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