The Low Frequency Variant Detection tool: Models and methods
This section describes the model, method and estimation procedure behind the Low Frequency Variant Detection tool. The Low Frequency Variant Detection tool is designed to detect variants in a sample for which the ploidy is unknown. The Low Frequency Variant Detection tool has a particularly high sensitivity for detecting variants that are present at any, and in particularly at low, allele frequencies.
Subsections
- The model for the Low Frequency Variant Detection tool
- Updating the choice of favored multinomial model for each site
- Updating equations for the multinomial model frequency parameters
- Updating equations for the error rates
- Probability of the variant