Please find here additional documents associated with this project. Occasionally MorphoBank receives matrices that are not formatted to parse to the database, these can also be found here, along with others and are presented 'as is' from the scientist.
8 Document Folders
Appendices from O'Leary et al., 2013, Science (28 documents)Appendix S1 placental reconstruction (Downloaded 141 times 
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)Appendix S2. Synapomorphies (Downloaded 104 times )
)Appendix S3. Deltran optimization on FIgure 2 tree (Downloaded 62 times )
)Appendix S4. ACCTRAN optimization on Figure 2 tree (Downloaded 40 times )
)To download the phenomic data-only matrix use the "Matrices" tab on your left.
This folder contains matrices of "combined data" (gene data + phenomic) data formatted for different programs and analyses (there is also a copy of these files in the Analyses folder). It also contains matrices for some partitioned studies.
Bayesian (Downloaded 62 times )
)Contains files for running Bayesian analysis on the phenomic data or the gene dataset partitions and the file used to rerun data from Meredith et al. 2011
ML (Downloaded 29 times )
)ML data files for analysis. Note this file contains more than combined datafiles it also contains some separate files for ML analysis of phenomic or gene data partitions alone.
Parsimony (Downloaded 104 times )
)Contains combined data files for the phenomic data + amino acids, the phenomic data + DNA, and the data from Meredith et al., 2011 formatted for parsimony analysis.
Contains log files, trees and related documents. This folder also contain a duplicate "Data Matrices for All Analyses".
Files for phylogenetic analyses (Downloaded 123 times )
)Contains Nexus, TNT and other files with molecular data or combined data used to generate trees, tree files and other supporting files.
Partition sequence in combined data Nexus file (Downloaded 36 times )
)changes in dental matrix (Downloaded 32 times )
)Cranial matrix notes (Wible) (Downloaded 45 times )
)Dental Character Abbreviations (Downloaded 31 times )
)Institution Codes (Downloaded 27 times )
)Media Orientations (Downloaded 16 times )
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)This documents the rules regarding use of media of the specimen from Te Papa Museum, New Zealand that toured the US in 2009-2010.
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)Supplementary Materials for The Placental Mammal Ancestor and the Post–K-Pg Radiation of Placentals (Downloaded 17 times )
)Included in this folder is the final file with the branch lengths calculated with GTR+G+I from each gene in O’Leary et al (2013). We excluded genes with missing data in key basal groups for a total of 25 genes. We have also included the Paup command file and the log file with the results. The pdf file contains the raw branch lengths. Raw branch lengths calculated using the Figure 1 of O’Leary et al. (2013). Branch lengths were calculated on this tree using the GTR+gamma+I model for all genes and for relevant branches.
Note - these calculations pertain only to O'Leary et al. 2013, in Science Vol 341 and not to accompanying Springer et al. piece.
commands-from-branch2 (Downloaded 13 times )
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)Raw branch lengths (Downloaded 13 times )
)Read Me (Downloaded 10 times )
)TABLE 2 rates4 MW ALC EXAMPLE (Downloaded 9 times )
)MorphoBank hosts phylogenetic data (matrices, characters, character states and documents) that are scientific facts in the public domain and not typically subject to copyright. Some authors have additionally marked their non-image data as CC0 
to emphasize its availability for reuse.
Image data on MorphoBank may, however, be subject to copyright and licenses should be checked before reuse.