# micompr v1.1.0

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## Multivariate Independent Comparison of Observations

A procedure for comparing multivariate samples associated with
different groups. It uses principal component analysis to convert
multivariate observations into a set of linearly uncorrelated statistical
measures, which are then compared using a number of statistical methods. The
procedure is independent of the distributional properties of samples and
automatically selects features that best explain their differences, avoiding
manual selection of specific points or summary statistics. It is appropriate
for comparing samples of time series, images, spectrometric measures or
similar multivariate observations.

## Readme

### Summary

The *micompr* R package implements a procedure for comparing multivariate
samples associated with different groups. The procedure uses principal component
analysis to convert multivariate observations into a set of linearly
uncorrelated statistical measures, which are then compared using a number of
statistical methods. This technique is independent of the distributional
properties of samples and automatically selects features that best explain their
differences, avoiding manual selection of specific points or summary statistics.
The procedure is appropriate for comparing samples of time series, images,
spectrometric measures or similar multivariate observations.

### How to install

Install the development version from GitHub with the following command (requires the devtools package):

```
devtools::install_github("fakenmc/micompr")
```

A stable version of the package is available on CRAN and can be installed with the following instruction:

```
install.packages("micompr")
```

### Documentation

All methods and functions are fully documented and can be queried using the
built-in help system. After installation, to access the man pages, invoke the
*micompr* help page as follows:

```
help("micompr")
```

Additionally, the package contains two vignettes with a number of examples.

### References

#### Practice

- Fachada N, Rodrigues J, Lopes VV, Martins RC, Rosa AC. (2016) micompr: An R
Package for Multivariate Independent Comparison of Observations.
*The R Journal*8(2):405–420. https://journal.r-project.org/archive/2016-2/fachada-rodrigues-lopes-etal.pdf

#### Theory

- Fachada N, Lopes VV, Martins RC, Rosa AC. (2017)
Model-independent comparison of simulation output.
*Simulation Modelling Practice and Theory*. 72:131–149. http://dx.doi.org/10.1016/j.simpat.2016.12.013 (arXiv preprint)

### License

## Functions in micompr

Name | Description | |

cmpoutput | Compares output observations from two or more groups | |

concat_outputs | Concatenate multiple outputs with multiple observations | |

plot.assumptions_paruv | Plot p-values for testing the assumptions of the parametric tests used in output comparison | |

plot.cmpoutput | Plot comparison of an output | |

pphpc_noshuff | Data from two implementations of the PPHPC model, one of which has agent list shuffling deactivated | |

pphpc_ok | Data from two similar implementations of the PPHPC model | |

summary.assumptions_cmpoutput | Summary method for the assumptions of parametric tests used in a comparison of an output | |

summary.assumptions_micomp | Summary method for the assumptions of parametric tests used in multiple comparisons of outputs | |

assumptions.micomp | Get assumptions for parametric tests performed on each comparisons | |

assumptions_manova | Determine the assumptions for the MANOVA test | |

plotcols | Default colors for plots in micomp package | |

pphpc_diff | Data from two implementations of the PPHPC model, one of which setup with a different parameter | |

print.assumptions_manova | Print information about the assumptions of the MANOVA test | |

print.assumptions_micomp | Print information about the assumptions concerning the parametric tests performed on multiple comparisons of outputs | |

grpoutputs | Load and group outputs from files | |

micomp | Multiple independent comparisons of observations | |

plot.assumptions_manova | Plot p-values for testing the multivariate normality assumptions of the MANOVA test | |

pst | Concatenate strings without any separator characters | |

plot.assumptions_micomp | Plot p-values for testing the assumptions of the parametric tests used in multiple output comparison | |

pvalcol | Associate colors to p-values | |

pphpc_testvlo | Data for testing variable length outputs | |

toLatex.cmpoutput | Convert cmpoutput object to LaTeX table | |

toLatex.micomp | Convert micomp object to LaTeX table | |

print.assumptions_cmpoutput | Print method for the assumptions of parametric tests used in a comparison of an output | |

summary.cmpoutput | Summary method for comparison of an output | |

summary.grpoutputs | Summary method for grouped outputs | |

assumptions | Parametric tests assumptions | |

assumptions.cmpoutput | Get assumptions for parametric tests performed on output comparisons | |

plot.grpoutputs | Plot grouped outputs | |

plot.micomp | Plot projection of output observations on the first two dimensions of the principal components space | |

print.assumptions_paruv | Print information about the assumptions of the parametric test | |

print.cmpoutput | Print information about comparison of an output | |

summary.micomp | Summary method for multiple comparisons of outputs | |

tikzscat | Simple TikZ scatter plot | |

assumptions_paruv | Determine the assumptions for the parametric comparison test | |

print.grpoutputs | Print information about grouped outputs | |

centerscale | Center and scale vector | |

plot.assumptions_cmpoutput | Plot p-values for testing the assumptions of the parametric tests used in output comparison | |

micompr | micompr: multivariate independent comparison of observations | |

print.micomp | Print information about multiple comparisons of outputs | |

pvalf | Format p-values | |

pvalf.default | Default p-value formatting method | |

tscat_apply | Multiple TikZ 2D scatter plots for a list of output comparisons. | |

No Results! |

## Vignettes of micompr

Name | ||

paper.Rnw | ||

tolatex-examples.Rnw | ||

No Results! |

## Last month downloads

## Details

Date | 2018-03-09 |

License | MIT + file LICENSE |

URL | https://github.com/fakenmc/micompr |

BugReports | https://github.com/fakenmc/micompr/issues |

LazyData | true |

Encoding | UTF-8 |

VignetteBuilder | knitr |

RoxygenNote | 6.0.1 |

NeedsCompilation | no |

Packaged | 2018-03-09 16:27:30 UTC; nfachada |

Repository | CRAN |

Date/Publication | 2018-03-09 16:36:22 UTC |

suggests | biotools , deseasonalize , devtools , knitr , MVN (>= 5.0) , roxygen2 , testthat (>= 0.8) |

imports | graphics , methods , stats , utils |

depends | R (>= 3.3.0) |

Contributors |

#### Include our badge in your README

```
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```