# smatr v3.4-8

Monthly downloads

## (Standardised) Major Axis Estimation and Testing Routines

Methods for fitting bivariate lines in
allometry using the major axis (MA) or standardised major axis (SMA), and
for making inferences about such lines. The available methods of inference
include confidence intervals and one-sample tests for slope and elevation,
testing for a common slope or elevation amongst several allometric lines,
constructing a confidence interval for a common slope or elevation, and
testing for no shift along a common axis, amongst several samples.
See Warton et al. 2012 <doi:10.1111/j.2041-210X.2011.00153.x> for methods description.

## Readme

# smatr: (Standardised) Major Axis Estimation and Testing Routines

`smatr`

is an R package for fitting (Standardised) Major Axis Lines to bivariate data. The package is described in the following publication:

Warton, David I., Duursma, Remko A., Falster, Daniel S. and Taskinen,
Sara (2012) **smatr 3 - an R package for estimation and inference about
allometric lines**. Methods in Ecology and Evolution, 3(2), 257-259. doi:10.1111/j.2041-210X.2011.00153.x.

**Abstract:**

1. The Standardised Major Axis Tests and Routines (SMATR) software provides tools for estimation and inference about allometric lines, currently widely used in ecology and evolution. 2. This paper describes some significant improvements to the functionality of the package, now available on R in smatr version 3. 3. New inclusions in the package include sma and ma functions that accept formula input and perform the key inference tasks; multiple comparisons; graphical methods for visualising data and checking (S)MA assumptions; robust (S)MA estimation and inference tools.

The package was programmed by David Warton, Remko Duursma and Daniel Falster and is maintained by Remko Duursma here.

## Installation

You can simply install this package from CRAN,

```
install.packages("smatr")
```

Or install the development version from bitbucket,

```
devtools::install_bitbucket ("smatr", "remkoduursma")
```

## Meta

Please report any issues or bugs.

To cite package `smatr`

in publications use:

```
Warton, David I., Duursma, Remko A., Falster, Daniel S. and Taskinen,
Sara (2012) smatr 3 - an R package for estimation and inference about
allometric lines Methods in Ecology and Evolution, 3(2), 257-259. doi:10.1111/j.2041-210X.2011.00153.x.
```

Get citation information for `smatr`

in R with `citation(package = 'smatr')`

.

## Functions in smatr

Name | Description | |

b.com.est | Common slope estimation | |

elev.com | Test for equal elevation among several lines fitted with (standardised) major axes of common slope. | |

elev.test | One-sample test of a (standardised) major axis elevation | |

coef.sma | Extract coefficients from a 'sma' or 'ma' fit | |

leafmeas | Leaf mass per area and photosynthetic rate for plant species from different sites | |

leaflife | Leaf longevity and leaf mass per area for plant species from different sites | |

fitted.sma | Returns fitted values | |

lr.b.com | Likelihood ratio statistic, assuming a common slope (called by slope.com) | |

line.cis | Slope and elevation of a (standardised) major axis, with confidence intervals | |

com.ci | Calculates a confidence inteval for a common slope (called by slope.com) | |

makeLogMinor | Generate spacing for minor tick marks on a plot with log-scaled axes | |

alpha.fun | Utility functions for robust fitting | |

residuals.sma | Extract model residuals | |

print.sma | Print an object of class 'sma'. | |

meas.est | Measurement error variance estimation from repeated measures | |

plotutils | Utility plotting functions | |

slope.com | Common slope test amongst several allometric lines | |

seqLog | Sequence Generation | |

plot.sma | Draw an X-Y plot | |

slope.test | One-sample test of a (standardised) major axis slope | |

sma | (Standardized) major axis estimation and testing for one or several samples | |

shift.com | Test for no mean shift along a common (standardised) major axis | |

multcompmatrix | Multiple comparisons graphical matrix | |

smatr-package | (Standardised) Major Axis Estimation and Testing Routines | |

summary.sma | Print a summary | |

No Results! |

## Last month downloads

## Details

License | GPL-2 |

URL | http://web.maths.unsw.edu.au/~dwarton, http://www.bitbucket.org/remkoduursma/smatr |

Collate | 'alpha.fun.R' 'b.com.est.R' 'coef.sma.R' 'com.ci.R' 'defineAxis.R' 'elev.com.R' 'elev.test.R' 'fitted.sma.R' 'huber.M.R' 'line.cis.R' 'logLik_sma.R' 'lr.b.com.R' 'ma.R' 'makeLogMinor.R' 'meas.est.R' 'multcompmatrix.R' 'nicePlot.R' 'plot.sma.R' 'predict.sma.R' 'print.sma.R' 'residuals.sma.R' 'robust.factor.R' 'seqLog.R' 'shift.com.R' 'slope.com.R' 'slope.test.R' 'sma.R' 'summary.sma.R' |

NeedsCompilation | no |

Packaged | 2018-03-18 20:51:38 UTC; remko |

Repository | CRAN |

Date/Publication | 2018-03-18 21:15:22 UTC |

Contributors | David Warton, Remko Duursma, Daniel Falster, Sara Taskinen |

#### Include our badge in your README

```
[![Rdoc](http://www.rdocumentation.org/badges/version/smatr)](http://www.rdocumentation.org/packages/smatr)
```