Posts Tagged ‘ vegan ’

permute: a package for generating restricted permutations

October 4, 2011
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permute: a package for generating restricted permutations

Multivariate ordination methods are commonly used in ecology to investigate patterns in species composition in space or time. Constrained ordination methods such as redundancy analysis (RDA) and canonical correspondence analysis (CCA) are effectively just multiple regressions, but we lack the … Continue reading →

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Clarke and Ainsworth’s BIOENV and BVSTEP (and BIO-BIO etc…)

June 30, 2011
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Clarke and Ainsworth’s BIOENV and BVSTEP (and BIO-BIO etc…)

Nonmetric Multidimensional Scaling (NMDS) plot of vegetation sample dissimilarities with best correlating environmental variables (left) and species (right) plotted as vectors (datasets "varespec" and "varechem" from the package ...

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What is ordisurf() doing…?

June 10, 2011
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What is ordisurf() doing…?

I’m writing this post for two reasons: i) someone searched on Google for the term “what is ordisurf doing” and ended up on my blog, and ii) because I have been on the receiving end of reviewers comments on a … Continue reading →

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Minor update to Vegan (1.17-10)

June 1, 2011
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Minor update to Vegan (1.17-10)

I overlooked blogging about this at the time, but Jari released a minor update to our Vegan package to fix a few issues following release of R 2.13-0. As far as the user is concerned, this mainly affects capscale(). metaMDSrotate(), … Continue reading →

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New version of vegan released to CRAN (1.17-9)

April 1, 2011
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New version of vegan released to CRAN (1.17-9)

Yesterday Jari packaged up the latest release in the current stable branch of the vegan package. Version 1.17-9 of vegan is now on CRAN as a source tarball with binaries for MS Windows and MacOS X to follow soon. New … Continue reading →

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Why I love open source!

December 3, 2010
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Why I love open source!

Today I had a great reminder of why I love open source software and why I spend a bit of my time contributing R code to several packages. In the vegan, I had included some code to do an analysis … Continue reading →

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