Changes between Version 30 and Version 31 of SOPs/go_annotation

Timestamp:

01/26/21 12:25:55 (4 years ago)

Author:

thiruvil

Comment:

--

SOPs/go_annotation

@@ -65 +65 @@
 [[http://bioconductor.org/packages/release/bioc/html/fgsea.html | fgsea]] is an R-package for fast preranked GSEA. This package allows to quickly and accurately calculate arbitrarily low GSEA P-values for a collection of gene sets. You may want to try fgsea if the Broad GSEA takes too long to run. 
 
-=== Cytoscape: BiNGO and ClueGO===
+=== Cytoscape: BiNGO and ClueGO for visualization ===
+
 You need to have [[http://cytoscape.org | Cytoscape]] installed to use BiNGO or ClueGO
 
@@ -75 +76 @@
   1.  Run BiNGO
 
-  ''Results'': Each node is color coded by its significance or p-value.  The size of a node represents the number of genes belonging to that GO term or category.
+  ''Results'': Each node is color coded by its significance or p-value.  The size of a node represents the number of genes belonging to that GO term or category.  Edges represents (parent-child) relationships between terms. 
 
 [[http://apps.cytoscape.org/apps/cluego | ClueGO Plugin/App]] and [[http://www.ici.upmc.fr/cluego/| documentation]] \\