filter out reads with MAPQ=0 & duplicated reads

[yangyangzijiajia]

for fraser junction count analysis, in default setting: ScanBamParam(mapqFilter=0), but sometime, we can see several duplicated reads with mapQ=0 and reads with multiple locations with mapQ=0, it can also cause the false positive abrrent splicing events. what's your opinion for mapqfilter setting? if we set mapqFilter >0, whether it results other false negative events?