## Copy number aberrations / Survival test for called copy number data

### Description

Statistical test for survival and called copy number data. The testing is recommended to be performed after running the Identify common regions from called aCGH data tool.

### Parameters

- Phenodata column with survival data
- Phenodata column with survival status (1=dead, 0=alive)
- Number of permutations (...) [10000]
- Aberrations to test (losses, gains, both) [both]

### Details

Perform the logrank test for survival with called copy number data. The significance of the p-values is evaluated through permutations, 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. Testing can be performed only for gains/losses, or both.

### Output

The input table appended with 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