General

Click on a button corresponding to a general annotation analysis process. Refer to the table below for guidance.

Process	Choose this process for...
Gene Set Enrichment	Performing an enrichment analysis by comparing columns of continuous statistics or measures with a column that defines a set of annotation categories
Gene Set Scoring	Transforming a tall data set with genes as rows into a tall data set with pathways or categories as rows, with relevance scores added based on individual deviations from a reference value for each gene Tip: Output from this process can be used as input to processes in the Expression Quality Control and Differential Expression menus, as well as the Pattern Discovery and Predictive Modeling menus in order to perform category-based inference.
List Enrichment	Comparing a set of curated lists against a table of significance values, and testing for significant enrichment using Fisher’s exact test for association
Create Web Links	Creating an annotation web link report with links to various Bioinformatics databases

See Annotation Analysis for other categories.