Mercurial > repos > vipints > rdiff
view rDiff/src/tests/comp_nbin_p_value_mean_variance.m @ 2:233c30f91d66
updated python based GFF parsing module which will handle GTF/GFF/GFF3 file types
author | vipints <vipin@cbio.mskcc.org> |
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date | Tue, 08 Oct 2013 07:15:44 -0400 |
parents | 0f80a5141704 |
children |
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function [P_VALUE,FLAG_ERR]=comp_nbin_p_value_mean_variance(MEAN1,MEAN2,SIGMA1,SIGMA2,COUNTS1,COUNTS2) %This function computes the p_value for a negative binomial %hypothesis test given the mean and variance of two nbin %distributions and counts from the respective distributions FLAG_ERR=0; r1=(MEAN1^2)/(SIGMA1-MEAN1); p1=1-(MEAN1/(SIGMA1)); r2=(MEAN2^2)/(SIGMA2-MEAN2); p2=1-(MEAN2/(SIGMA2)); P_OBS=calcl_nbin_pdf(COUNTS1,r1,1-p1)*calcl_nbin_pdf(COUNTS2,r2,1-p2); P_A=calcl_nbin_pdf(0:(COUNTS1+COUNTS2),r1,1-p1); P_B=calcl_nbin_pdf((COUNTS1+COUNTS2):(-1):0,r2,1-p2); P_COMB=sort(P_A.*P_B); if sum(P_COMB)>0 POS= find(P_COMB<=P_OBS,1,'last'); if isempty(POS) P_VALUE=min(P_COMB); else P_VALUE=sum(P_COMB(1:POS))/sum(P_COMB); end else P_VALUE=1; end