Epigenomics 2016 Workshop, February 2, 2016
Please run the following steps before the workshop in order not to overstress the internet connection at the workshop venue. Do not hesitate to contact us (email@example.com) if you encounter any problems.
R session and run the following command:
Note that several packages will be downloaded from the
bioconductor repositories and installation therefore can take a while.
After the installation, confirm that
RnBeads can be loaded:
Ghostscript is required for
RnBeads plotting functionality. Please install using the instructions according to your platform.
Rwhere to find ghostscript. To do so, it is necessary to set adapt your system’s
System and Security→
Advanced System Settings→
computer name, domain and workgroup settings→
System Variables, select it and click on
C:\Program Files\gs\gs9.18\bin(or the directory where you installed ghostscript to) to the
Pathvariable. In Windows 10, you can do this by clicking on
Newand entering the path. In other Windows versions, just append the path to the variable value, seperated by a semicolon.
Ghostscript 9.18package from http://pages.uoregon.edu/koch/
RnBeadsplotting works properly
R session and try the following commands.
library(RnBeads) setwd(tempdir()) rplot <- createReportPlot("test_gs") plot(1:20, pch = 1:20) off(rplot)
We will run the tutorial code using
RStudio is an integrated development environment (IDE) for the
R programming language and you can easily manage your
R code and projects with it. Although it is not required for running
RnBeads analyses, we recommond you give it a try. You can download and install it from the
RStudio website: https://www.rstudio.com/
author: Fabian Müller <firstname.lastname@example.org>