| MAGMA-Quickstart.pdf | Gives a quick introduction on how to use MAGMA |
| MAGMA and JSF.pdf | Sketches the JSF-based architecture of MAGMA |
| MAGMA-Processing.pdf | Documents the R-based processing that is applied to the data. |
MAGMA performs the processing in R and documents this with an automatically generated R-script "commands.r" that is available for each result. The generated R-Script references MAGMA-specific helper functions that are contained in the scripts listed below. Making use of such functions renders the generated R-Script clear and concise.
| upload.r | Upload step |
| annotate.r | Annotate step |
| normalize.r | Normalize step |
| analyse.r | Analyse step |
| magmaPlots.r | Plotting functions |
| misc.r | General functions |
Why is the script commands.r not properly displayed in Internet Explorer?
In the Internet Explorer use right-click > Show Source to view the script properly.