Reporting Methods

Reporting methods

There are several algorithms that can be run post-alignment to further process the results.

Minimum Percent

Method name: minPct

minPct sums all the scores from any read group containing a given read R. If this fraction is less than a parameter pct, we drop R from all read groups. pct defaults to 0.01.

Minimum Count

Method name: minCount

minCount sums all the scores from any read group containing a given read R. If this sum is less than a parameter count, we drop R from all read groups. count defaults to 5.