[data]
query.format=bed
reference.format=bed
mapping.format=none
do.mapping=FALSE

[chromosomes]

[chromosomes.length]


[options]
add.chr.as.prefix=FALSE
awhole.only=FALSE
supress.evaluated.length.warning=TRUE
cut.all.over.length=FALSE
keep.distributions=TRUE
showProgressBar=FALSE

[tests]
ecdf.area.permut.number=100
mean.distance.permut.number=100
jaccard.measure.permut.number=100