Minimum Limit of Detection at Genomic Location filter

The Minimum Limit of Detection at Genomic Location filter can be added to filter chains to filter for a minimum limit of detection (LOD) at chromosomal locations within a selected range.

This LOD calculation depends on the depth of coverage at a given chromosomal location and the probability that is defined by Minimum Callable Probability parameter.

This filter is for use with Ion AmpliSeq HD and TagSeq analysis results and analysis workflows only. For more information, see Variant Finding parameters.

Filter conditions include the ability to set a minimum and a maximum value for minor allele frequency. Ranges from 0.0 to 0.0045 can be selected for the minimum in the From field and in the To field for the maximum. In addition, the range boundary values can be included or excluded, and unannotated variants can be included or excluded in filtered analysis results.