# LeBauer:Software/Statistics

### From OpenWetWare

(Difference between revisions)

(→Kepler) |
(→Kepler) |
||

Line 25: | Line 25: | ||

</pre> | </pre> | ||

- | ==[https://kepler-project.org | + | ==Kepler== |

+ | [https://kepler-project.org Kelper project homepage] | ||

+ | |||

1. download Kepler from website | 1. download Kepler from website | ||

<pre> | <pre> |

## Revision as of 15:54, 13 August 2010

## Contents |

## R

### R packages

**ggplot2**simplifies graphical data visualization and presentation**coda**tools for analysis of mcmc chains**randtoolbox**has function for generating pseudo-random samples; the halton() function produces a pseudo-random over-dispersed matrix that I use to sampling from the distributions of ~20 parameters used in ensemble runs of the ED2 ecosystem model.-
**adimpro**for image analysis

##example R code for extracting jpg to N x M x 3 matrix ##much slower than Matlab imread() a <- read.image('file.jpg') b <- extract.image(a) red <- b[,,1] green <- b[,,2] blue <- b[,,3]

## JAGS

##### Installing Jags packages (rjags and R2jags) in R

wget http://cran.r-project.org/src/contrib/R2jags_0.01-26.tar.gz sudo R CMD INSTALL R2jags_0.01-26.tar.gz wget http://cran.r-project.org/src/contrib/rjags_1.0.3-11.tar.gz sudo R CMD INSTALL rjags_1.0.3-11.tar.gz

## Kepler

1. download Kepler from website

wget https://code.kepler-project.org/code/kepler/releases/installers/2.0/Kepler-2.0-linux.jar Kepler-2.0-linux.jar

follow the instructions to install Kepler, if installation does not begin, double-click on the file

after installation, need to download jar file for jdbc java connection

wget http://www.mysql.com/get/Downloads/Connector-J/mysql-connector-java-5.1.13.tar.gz/from/ftp://mirror.anl.gov/pub/mysql/ tar -zcf mysql-connector-java-5.1.13.tar.gz cp mysql-connector-java-5.1.13.tar.gz ~/Kepler-2.0/