1. Plots Bioconductor
2. Gplots Bioconductor

Thank you very much! 2012/6/7 Dan Tenenbaum On Thu, Jun 7, 2012 at 5:58 AM, German Gonzalez guest bioconductor.org wrote: Yesterday a new version gdata package (2.8.2) was released. The GOplot package concentrates on the visualization of biological data. More precisely, the package will help combine and integrate expression data with the results of a functional analysis. The package cannot be used to perform any of these analyses. It is for visualization purpose only. On many occasions, CRAN will say that a particular package for your version of R does not exist, when it may already exist via Bioconductor. Remember that Bioconductor is just a consortium. There are people behind that consortium who work hard to keep packages updated. Genome wide annotation for Fly Bioconductor version: Release (3.12) Genome wide annotation for Fly, primarily based on mapping using Entrez Gene identifiers. DOI: 10.18129/B9.bioc.limma Linear Models for Microarray Data. Bioconductor version: Release (3.12) Data analysis, linear models and differential expression for microarray data.

Have no fear, the screenshots are here! (For the original tutorial, click here)

Part 1-Getting the Package onto Your Computer

1. Open R via your preferred method (icon on desktop, Start Menu, dock, etc.)
2. Click “Packages” in the top menu then click “Install package(s)”.
3. Choose a mirror that is closest to your geographical location.
4. Now you get to choose which packages you want to install. If you would like to install multiple packages, click on each one while holding the CTRL key or the cloverleaf-looking key. For now just highlight “ggplot2″.
5. You will know when the package has been downloaded onto your computer when another greater-than symbol (“>”) appears.

Part 2-Loading the Package into R

1. Type “library(ggplot2)” and then press the Enter/Return key.
2. All done.

You will only need to do Part 1 once time on your computer. From now on, you only need to do Part 2 each time you close and restart R.

Use this method once you get more acquainted with the whole copy and paste business. It is much quicker than Method 1.

Part 1-Getting the Package onto Your Computer

Plots Bioconductor

1. Type “install.packages(“gplots”)” and then press the Enter/Return key.
2. If you have already loaded a package from a server in the R session, then R will automatically install the package. If not, R will automatically prompt you to choose a mirror. Again, choose one close to unless you want to watch a loading bar slowly inch its way to fulfillment.
   

Part 2-Loading the Package into R

1. Type “library(gplots)” and then press the Enter/Return key.
2. All done. R will spit out a lot more output because it needs to install other packages required for gplots.

Again, you will only need to do Part 1 one time on your computer. From now on, you only need to do Part 2 each time you close and restart R.

Gplots Bioconductor

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