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7ac1e7c @cboettig Update README.md
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1 ## Phylogenetic Monte Carlo
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3 __NOTE__ This package is currently deprecated. See [http://www.carlboettiger.info/2013/04/23/we-need-more-object-oriented-design-in-comparative-methods.html](http://www.carlboettiger.info/2013/04/23/we-need-more-object-oriented-design-in-comparative-methods.html)
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5 * Author: Carl Boettiger
6 * License: [CC0](http://creativecommons.org/publicdomain/zero/1.0/)
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8 This package accompanies my publication, with Graham Coop & Peter Ralph (2012) **Is your phylogeny
9 Informative? Measuring the power of comparative methods**. In *Evolution*.
10 ([doi](http://dx.doi.org/10.1111/j.1558-5646.2012.01574.x))
11 ([pdf](http://www.mendeley.com/download/public/98752/4485545653/9a209c7dd29980fd2e47c06eb8b2d1d7dd6f70d4/dl.pdf))
12 ([arXiv](http://arxiv.org/abs/1110.4944))
13 ([code](https://github.com/cboettig/pmc))
14 ([data](http://datadryad.org/handle/10255/dryad.37645))
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18 ## Install
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20 The easiest way to install the current release is through the CRAN repository,
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21
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22 ```r
23 install.packages("pmc")
24 ```
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25
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26 To install the current development version, there are a few options. One is to install `devtools` package, which will let you install directly from github:
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28 ```r
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29 install.packages("devtools")
30 library(devtools)
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31 install_github("pmc", "cboettig")
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32 ```
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34 The other option is to download the current tarball, put it in the working directory, and then install from R using
35 ```r
36 install.packages("pmc*.tar.gz", ,type="source", repos=NULL)
37 ```
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39 ## Getting Started
40 The best place to start learning the package commands is to read the [package vignette](https://github.com/cboettig/pmc/blob/master/vignettes/pmc_tutorial.pdf), copy-pasting the examples in as you go. For a faster start, just look at the examples in the function documentation, i.e. `?pmc`.
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42 ## Bug Reports
43 If you find the package is giving unexpected results, is missing a feature you'd like, or have any other questions about the package, don't hesitate to email me.
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45 You can also [file an issue](https://github.com/cboettig/pmc/issues) which will provide a record of the bug/request. Posting an issue also automatically sends me an email.
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