Installing¶
Requirements¶
Minimum versions (latest versions are recommended):
Package | Minimum Version |
---|---|
Cytoscape | 3.9.0 |
WordClound | 3.1.0 |
clusterMaker2 | 0.9.5 |
Installation¶
Install Cytoscape
- If you don’t have Cytoscape please download and install the latest release from http://www.cytoscape.org/download.php.
Install AutoAnnotate
- Open Cytoscape
- In the main menu select Apps > App Manager
- In the App Manager select AutoAnnotate in the list of All Apps and click the Install button.
- WordCloud and clusterMaker2 will also be installed automatically along with AutoAnnotate
Alternatively the apps can be installed from the Cytoscape App Store
- AutoAnnotate: http://apps.cytoscape.org/apps/autoannotate
- WordCloud: http://apps.cytoscape.org/apps/wordcloud
- clusterMaker2: http://apps.cytoscape.org/apps/clustermaker2
Optional Apps that work well with AutoAnnotate
- AutoAnnotate is part of the EnrichmentMap Collection. AutoAnnotate will automatically choose
appropriate defaults for networks created by the EnrichmentMap App.
- EnrichmentMap Collection: https://apps.cytoscape.org/apps/enrichmentmappipelinecollection
- EnrichmentMap: https://apps.cytoscape.org/apps/enrichmentmap
- The MCODE App is a popular clustering App that works well with AutoAnnotate.