public boolean underGenomicThreshold(int count, char strand) {
boolean pass = true;
for (BackgroundModel m : models) {
if (m.isGenomeWide() && m.getStrand() == strand) if (!m.underThreshold(count)) pass = false;
}
return pass;
}
public boolean underAllThresholds(int count, char strand) {
boolean pass = true;
for (BackgroundModel m : models) {
if (m.getStrand() == strand) if (!m.underThreshold(count)) pass = false;
}
return pass;
}
// Print
public void printThresholds() {
for (BackgroundModel m : models) {
System.out.println(m.modelType + "\t" + m.getThreshold() + "\t" + m.getStrand());
}
}
// Update
public void updateModels(
Region currReg, int currOffset, double[] thisExptHitCounts, double[] otherExptHitCounts) {
for (BackgroundModel m : models)
m.updateModel(currReg, currOffset, thisExptHitCounts, otherExptHitCounts);
}
public int getMaxThreshold(char str) {
int max = 0;
for (BackgroundModel m : models)
if ((m.strand == str || str == '.') && m.getThreshold() > max) max = m.getThreshold();
return max;
}
// Accessor
public int getGenomicModelThreshold(String tType) {
for (BackgroundModel m : models) if (m.isGenomeWide()) return m.getThreshold();
return -1;
}