Pomelo II
What you can do:
Perform analysis on gene and protein expression data.
Highlights:
- Pomelo II is a web-based tool for the analysis of gene (and protein) expression and tissue array data.
- Pomelo II implements: permutation-based tests for class comparisons (t-test, ANOVA) and regression; survival analysis using Cox model; contingency table analysis with Fisher's exact test; linear models (of which t-test and ANOVA are especial cases) that allow additional covariates for complex experimental designs and use empirical Bayes moderated statistics.
- Permutation-based and Cox model analysis use parallel computing, which permits taking advantage of multicore CPUs and computing clusters.
- Access to, and further analysis of, additional biological information and annotations (PubMed references, Gene Ontology terms, KEGG and Reactome pathways) are available either for individual genes (from clickable links in tables and figures) or sets of genes.
- The source code is available, allowing for extending and reusing the software.
- A comprehensive test suite is also available, and covers both the user interface and the numerical results.
Keywords:
- gene ontology
- gene expression
- protein expression
- microarray
Literature & Tutorials:
PubMed Link: Pomelo II: finding differentially expressed genes
This record last updated: 08-13-2009