Unverified Commit edd90686 authored by Todor Kondic's avatar Todor Kondic
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Update docs

parent 615f8fb5
......@@ -38,20 +38,44 @@ or as a package from your GNU/Linux distribution.
10. When at the login screen, ensure you are using the `Xfce Session` (settings wheel, bottom right) before entering your password.
11. Pro-tip: User experience may be better in fullscreen (`F8` and select `fullscreen`)
## Using Environmental Cheminformatics Programs
## Using Environmental Cheminformatics programs
### Getting started with Shinyscreen
Shinyscreen is ECI's mass spectrum inspection program. It was written
in R and exists as a R package. In order to run it, it is necessary to
start a R session.
While most students get to know R through R Studio, this development
environment (DE) is by no means the only one that can run R (indeed,
you do not even need a DE to run R: try it yourself, start a command
console and type `R` in there). The default choice of R DE on
`alien-one` currently is GNU Emacs with its *Emacs Speaks Statistics
(ESS)* mode.
### Getting started
1. Fire up emacs
2. `Alt-x` and `R` gets you an R session
3. Enter `library(shinyscreen)`
4. Enter `options(browser="chromium")`
5. Enter `launch()`
### JustInCase - Downloading instructions
Alternatively, there there are two icons on your desktop that will
start Shinyscreen immediately without a R session. One starts the
stable version of Shinyscreen (used in this course). The other runs a
development version (you can try it out if you feel adventurous).
### Material needed for the practical
The *mzML* data files are in `/mnt/exchange` directory.
#### Just in case
1. Raw files `*.mzML` can be downloaded from [here](https://zenodo.org/record/3666069)
2. Input files for Shinyscreen from [here](https://git-r3lab.uni.lu/eci/isb401/-/tree/master/shinyscreen_files)
### The Rest
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