Enrichment Map Post Analysis Tutorial

This tutorial has been moved to: http://enrichmentmap.readthedocs.io/en/docs-2.2/Tutorial_PA.html

This tutorial is based on the older 2.2 version of EnrichmentMap. Newer tutorials are available here: https://baderlab.github.io/Cytoscape_workflows/EnrichmentMapPipeline/

Software/EnrichmentMap/PostAnalysisTutorial (last edited 2018-04-19 18:29:21 by MikeKucera)

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-  ⇤ ← Revision 4 as of 2014-05-31 15:12:37 → 
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-= Outline =
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-This quick tutorial will guide you through the creation of an additional gene-set on an pre-existing Enrichment Map. It can for example help to localize microRNA, transcription factors or drug targets in enriched pathways displayed on the map. The new gene-set that we want to add to the network is called the signature gene-set.  

To run this tutorial:
    * You need to have Cytoscape installed : minimally 2.6.3 must be installed but preferable to have the latest version of Cytoscape 2 (e.g. 2.8.3)
    * It does not work with Cytoscape 3
    * Install the Enrichment Map plugin from the Cytoscape plugin manager. If you install it manually (e.g. if you need to install a new version that doesn't happen to be in the plugin manager yet), then it must be in the Cytoscape-[Version#]/plugins folder
    * You need to download the test data: [[attachment:PostAnalysisTutorial.zip]]

Description of the tutorial files contained in the PostAnalysisTutorial folder:
    * CTCF_DIFF.gmt : List of the genes included in the signature gene-set.
    * Human_GO_AllPathways_no_GO_iea_April_15_2013_symbol.gmt: Original gene-set file that has been used to create the original Enrichment Map
    * ES12_EM_example.cys: the EnrichmentMap on which we want to add the signature gene-set
+This tutorial is based on the older 2.2 version of EnrichmentMap. Newer tutorials are available here: https://baderlab.github.io/Cytoscape_workflows/EnrichmentMapPipeline/