ACMECalcSet-class	ACMECalcSet-class
ACMESet-class	ACMESet-class
aGFF-class	aGFF-class
aGFFCalc-class	aGFFCalc-class
chromosome	generics
chromosome,ACMESet-method	ACMESet-class
cutpoints	generics
cutpoints,ACMECalcSet-method	ACMECalcSet-class
do.aGFF.calc	do.aGFF.calc
end	generics
end,ACMESet-method	ACMESet-class
example.agff	example.agff
findClosestGene	findClosestGene
findRegions	findRegions
getRefflat	getRefflat
plot	generics
plot,ACMECalcSet-method	ACMECalcSet-class
plot,ACMESet-method	ACMESet-class
plot,aGFF-method	aGFF-class
plot,aGFFCalc-method	aGFFCalc-class
print,aGFF-method	aGFF-class
print,aGFFCalc-method	aGFFCalc-class
read.resultsGFF	read.resultsGFF
show,ACMECalcSet-method	ACMECalcSet-class
show,aGFF-method	aGFF-class
show,aGFFCalc-method	aGFFCalc-class
start	generics
start,ACMESet-method	ACMESet-class
threshold	generics
threshold,ACMECalcSet-method	ACMECalcSet-class
vals	generics
vals,ACMECalcSet-method	ACMECalcSet-class
write.bedGraph	write.bedGraph
write.sgr	write.sgr
