Report from LightSpeed Fastq to Variants tools
The report from the LightSpeed variant calling tools provides information about each step that has been enabled in a given analysis. In the following, each section in the report is described.
The following terms are used in many sections of the report:
- Specific read pairs Read pairs where one best match for mapping was identified.
- Non-specific read pairs Reads that map equally well to more than one genomic position.
- Proper read pairs Read pairs where the distance between read 1 and read 2 are within the expected range for a pair.
- Broken read pairs Read pairs where the distance between read 1 and read 2 exceed the expected distance for a read pair and read pairs where only one of the reads were mapped.
Subsections