## aCGH / Group tests for called aCGH data

### Description

Statistical tests between two or more groups for called aCGH data. The testing is recommended to be performed after running the Identify common regions from called aCGH data tool.

### Parameters

- Phenodata column separating the samples into two or more groups
- Test statistic (Chi-square, Wilcoxon, Kruskal-Wallis) [Chi-square]
- Number of permutations (...) [10000]

### Details

Perform statistical testing between groups for differences in copy number aberrations. Three different test statistics are available for the p-value calculations. The significance of the p-values is evaluated by permuting the sample groups, and a false discovery rate is calculated. At least 10,000 permutations are recommended for final calculations, and this will require a significant amount of time.

### Output

The input table appended with loss/gain/amplification frequencies for the different groups, along with p-values and false discovery rates.

### References

Wiel et al. (2005) CGHMultiArray: exact p-values for multi-array comparative genomic hybridization data. Bioinformatics 21: 3193-3194