efischer/BiGpairSEQ
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Three ways of making graph, but [...]MatrixGenerator is fastest

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efischer
2021-11-10 11:18:31 -06:00
parent 93cac1d38a
commit d39fdbee3b
3 changed files with 100 additions and 50 deletions
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24
src/main/java/Equations.java
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@@ -1,13 +1,29 @@
import java.math.BigDecimal;
import java.math.BigInteger;
import java.math.MathContext;
public abstract class Equations {
public static double pValue(Integer w, Integer w_a, Integer w_b, Integer w_ab) {
return 1.0;
public static double pValue(Integer w, Integer w_a, Integer w_b, double w_ab_d) {
int w_ab = (int) w_ab_d;
double pv = 0.0;
Integer maxOverlap = w_a >= w_b ? w_b : w_a;
for(int i = w_ab; i <= maxOverlap; i++){
pv += probPairedByChance(w, i, w_a, w_b);
}
return pv;
}
private static double probPairedByChanc(Integer w, Integer w_a, Integer w_b, Integer w_ab){
return 1.0;
private static double probPairedByChance(Integer w, Integer w_a, Integer w_b, Integer w_ab){
BigInteger numer1 = choose(w, w_ab);
BigInteger numer2 = choose(w - w_ab, w_a - w_ab);
BigInteger numer3 = choose(w - w_a, w_b - w_ab);
BigInteger numer = numer1.multiply(numer2.multiply(numer3));
BigInteger denom = choose(w, w_a).multiply(choose(w, w_b));
BigDecimal numer_d = new BigDecimal(numer);
BigDecimal denom_d = new BigDecimal(denom);
BigDecimal prob = numer_d.divide(denom_d, MathContext.DECIMAL64);
return prob.doubleValue();
}
/*