diff --git a/README.md b/README.md index 306d64f..3f4a362 100644 --- a/README.md +++ b/README.md @@ -15,7 +15,9 @@ Simply download [Proteinarium.zip](https://drive.google.com/file/d/14Lz1EVj1qY9N ## Requirements At least one of Java 1.8, Java 9, or Java 10 must be installed in order to run Proteinarium. The Proteinarium GUI, in addition to Java, requires JavaFX to be installed. Java 1.8 comes with JavaFX as part of the JDK and JRE. + ---------------------------------------------- + ## Video Tutorials We've recorded two video tutorials that show how to download and run Proteinarium using the command line and graphical user interfaces. Click the video thumbnails below to watch them. @@ -43,7 +45,6 @@ group2GeneSetFile = group2.txt projectName = Project Name Here ``` - ## 2. Running Proteinarium The `` is `config=config.txt` @@ -114,6 +115,7 @@ To view the summary information for a particular cluster or sample, enter "info **Note**: the above information is available for all patients at any time in the **\_ClusterAnalyses.csv** output file. ---------------------------------------------- + ## Running Proteinarium with Graphical User Interface (GUI) ## 1. Getting Started @@ -147,7 +149,6 @@ To view the summary information for a particular cluster or sample, enter "info * **\\_Dendrogram.png:** dendrogram image * **\\_Dendrogram.txt:** representation of the dendrogram in Newick tree format - ## 3. Viewing Clusters * When Proteinarium is done running, the GUI will navigate to a new window in which you can input the Cluster/Sample ID for which you are interesting in viewing or obtaining more information.