Up: Component summary
Up: Component summary
Component
GenotypeComparatorCompares the allele and genotype differences between two sets of genotype frequencies. Columns of the output statistics are described in the LaTeX documentation of this component.
| Version | 1.7 |
|---|---|
| Bundle | microarray |
| Categories | SNP |
| Authors | Marko Laakso (Marko.Laakso@Helsinki.FI) |
| Issue tracker | View/Report issues |
| Requires | commons-math3-3.2.jar (jar) ; microarray.jar (jar) ; installer (bash) |
| Source files | component.xml |
| Usage | Example with default values |
Inputs| Name | Type | Mandatory | Description |
|---|---|---|---|
| caseF | SNPFreq | Mandatory | A table of case genotype frequencies |
| controlF | SNPFreq | Mandatory | A table of control genotype frequencies |
Outputs| Name | Type | Description |
|---|---|---|
| statistics | CSV | A table of genotype frequencies |
Parameters| Name | Type | Default | Description |
|---|---|---|---|
| CILimit | float | 0.99 | Coverage of the confidence intervals. |
| PLimit | float | 1.00 | Do not generate output for markers where all p-values are greater than this limit. |
| RiskType | string | "RiskRatio" | Risk comparison method. Only RiskRatio and OddsRatio are correct values. |
| skipCI1 | boolean | false | Do not generate output for markers where each confidence interval includes one. |
Test cases| Test case | Parameters▼ | IN caseF |
IN controlF |
OUT statistics |
|---|---|---|---|---|
| case1 | (missing) | caseF | controlF | statistics |