lcaCoveragePercent = weightedLCAPercent?


does the “lcaCoveragePercent” parameter for daa2rma mean the same as “weightedLCAPercent” (provided that “alg” is set to weighted, of course). And what does the “Min complexity” LCA parameter mean (obviously only available via the GUI of Megan)?

Thank you.


Dear Ralf,


The min complexity parameter is a number between 0 and 1 and when set, activates a DNA low-complexity filter (using the Wootten and Federhen approach). Any read whose sequencing complexity does not exceed the threshold is placed on a special “low complexity” node.

Best wishes