10.6084/m9.figshare.3557655.v1
Nicole E. Rafferty
Nicole E.
Rafferty
Anthony R. Ives
Anthony
R. Ives
Supplement 1. Matlab code for phylogenetic linear mixed models (PLMMs).
Wiley
2016
climate change
plant–pollinator interactions
phenology
interaction network
linear mixed models
phylogenetic signal
Environmental Science
Ecology
2016-08-10 03:18:11
Dataset
https://wiley.figshare.com/articles/dataset/Supplement_1_Matlab_code_for_phylogenetic_linear_mixed_models_PLMMs_/3557655
<h2>File List</h2><div>
<p><a href="bipartitePLMM.m">bipartitePLMM.m</a> (MD5: 1faa3ddc7f0b798584516c24a25f0910)</p>
<p><a href="LMM_ML_funct.m">LMM_ML_funct.m</a> (MD5: b349b7e49bad43c44c712d6f95b25223)</p>
<p><a href="LMM_REML_funct.m">LMM_REML_funct.m</a> (MD5: 50543ce9f7389cfaf48de292576add19)</p>
<p><a href="Example_bipartitePLMM_11Apr13.m">Example_bipartitePLMM_11Apr13.m</a> (MD5: efb0763a133c4320794b326724d16f94)</p>
<p><a href="anneal.m">anneal.m</a> (MD5: 70672ad1d98fcf004cea433bbcbc214d)</p>
<p><a href="insectVforMatlab_7Apr11.txt">insectVforMatlab_7Apr11.txt</a> (MD5: 79c98da8147d38241d9405d17605b8da)</p>
<p><a href="plantVforMatlab_14Apr11.txt">plantVforMatlab_14Apr11.txt</a> (MD5: 70aad149b8a565dc21753a5d23ef97fb)</p>
</div><h2>Description</h2><div>
<p>bipartitePLMM.m – This function is the general workhorse for bipartite PLMMs. It can be configured to perform the analyses of both equations 2 and 3 in the main text.</p>
<p>LMM_ML_funct.m – This is a dependency program for bipartitePLMM.m that computes the likelihood function.</p>
<p>LMM_REML_funct.m – This is a dependency program for bipartitePLMM.m that computes the restricted likelihood function.</p>
<p>Example_bipartitePLMM_11Apr13.m – This function runs bipartitePLMM.m for the simulations used to produce figures 2 and 3 in the main text.</p>
<p>anneal.m – This is a dependency program for bipartitePLMM.m that performs simulated annealing. It was written by Joachim Vandekerckhove and is publicly available at http://www.mathworks.com/matlabcentral/fileexchange/authors/23107.</p>
<p>insectVforMatlab_7Apr11.txt – File giving the phylogenetic covariance matrix for insects used in the analyses.</p>
<p>plantVforMatlab_14Apr11.txt – File giving the phylogenetic covariance matrix for plants used in the analyses.</p>
</div>