README.md

In planit-group/Rplanit: Radiotherapy with ion beams - planning, simulations and analysis

Rplanit

Radiotherapy with ion beams: planning, simulations and analysis

Author: Andrea Attili

Maintainer: Andrea Attili [e-mail]

Description: A collection of methods and procedures to perform simulations and analysis related to radiotherapy treatment planning (with ion beams). It includes a set of radiobiological evaluations and display possibilities.

To perform radiobiological evaluations see also Survival. An integration of Rplanit with Survival is underway.

To perform simulations and optimizations of treatments (TPS) an integration with the updated code Planit (based on Russo et al. 2016 and with Topas is underway.

Installation

NOTE: the following instructions are mostly outdated.

Ubuntu (12.04 64bit)

• The following libraries need to be installed from the Ubuntu repository (from the terminal shell prompt):

$ sudo apt-get install libcurl4-openssl-dev
$ sudo apt-get install tk8.5-dev
$ sudo apt-get install libsdl1.2-dev
$ sudo apt-get install mesa-common-dev # optional, for OpenGL rendering
$ sudo apt-get install libssl-dev
$ sudo ln -s /lib/x86_64-linux-gnu/libcrypto.so.1.0.0 /lib/x86_64-linux-gnu/libcrypto.so.6
$ sudo ln -s /lib/x86_64-linux-gnu/libssl.so.1.0.0 /lib/x86_64-linux-gnu/libssl.so.6
$ sudo apt-get install libgsl0-dev
$ sudo apt-get install liblog4cxx10-dev

• Install the latest version of R (for Ubuntu 12.04) following the instruction at this link.
• Optional (but recommended): install the latest version of RStudio from this link.

Ubuntu (14.04+ 64bit)

• The following libraries need to be installed from the Ubuntu repository (from the terminal shell prompt):

$ sudo apt-get install libcurl4-openssl-dev
$ sudo apt-get install tk8.6-dev
$ sudo apt-get install libsdl1.2-dev
$ sudo apt-get install mesa-common-dev  # optional, for OpenGL rendering
$ sudo apt-get install liblog4cxx10-dev

• Install the latest version of R (for Ubuntu 14.04) following the instruction at this link.
• Optional (but recommended): install the latest version of RStudio from this link.

Mac OSX (Darwin)

• Install Xcode and XQuartz from the Apple site.
• Install the GSL libraries form source (instructions). Alternatively it should be possible to install the binaries using Mac Ports.
• Install the log4cxx libraries from source link. (The installing procedure is similar to the GSL libraryies)
• Install the latest version of R from the official web site.
• Optional (but recommended): install the latest version of RStudio from this link.

Rplanit installation

• To install the Rplanit package from github (from the R prompt):

> install.packages("devtools") # it needs to be done only once
> library(devtools)
> install_github("planit-group/Rplanit", dependencies=TRUE)

• To load the package:

> library(Rplanit)

Tutorial

A tutorial (in Italian) is available at http://rstudio-pubs-static.s3.amazonaws.com/66368_3aea5f348bd144ca89f9faf9bb1167b4.html

planit-group/Rplanit documentation built on Dec. 5, 2022, 11:10 p.m.