The probability of Not Excluding a Random Man (pMNE)
A novel bioinformatics and statiatical tool for calculating the probability of Random Man Not Excluded (pRMNE) based on multiple loci alleles and popualtion frequency. The tool is programmed in Python3.
The tool is prograqmmed in Pyhton v3.9. No installation is needed. It can be run after downloading from Github using the following command in a terminal.
git clone https://github.com/XuewenWangUGA/pRMNE
or click the download button in the Github page to download the .zip file , then uncompressed the downloaded file.
Usage:
python pRMNE.py [options]
e.g.,
python3 pRMNE.py -d databaseAllele.txt -e evidenceAllele.txt -s suspectAllele.txt -t 2 > outResults.txt
Options:
-h, --help: show this help message and exit
-d, --databaseAlle: string, required input file of dataBase with Allele count data, tab delimited
-e, --evidenceAlle: string, required input file of observed evidence Alleles, tab delimited
-s, --suspectAlle: string, required input file of suspect Alleles, tab delimited
-l, --log10: flag only, no value,output the probability after log10 conversion if -l is given.
-t, --threads: int, the number of parallelized computing threads, default 2
the result will be output to standard output/screen. use > to redirect to a file
The output is a tab seperatedly text file. The data is the exclusion probability of a random man in each super population at each STR locus site and all combined sites for 26 populations (FIN,CDX,IBS,MXL,CHB,CHS,CEU,JPT,ESN,KHV,TSI,CLM,YRI,GBR,PEL,STU,BEB,GIH,PJL,MSL,ITU,GWD,LWK,ASW,PUR,ACB), 5 supperpopulations (EAS, EUR, AFR,SAS, AMR).
e.g. for AFR (Africa popupation): 20 CODIS loci and All loci combined at a p value 8.23071958151542135332E-36
Population Locus Probability_of_Exclusion(PE) Probability_of_Inclusion(PI) Adjusted_PE² Adjusted_PI² Adjusted_PE³ Adjusted_PI³
AFR CSF1PO 9.99943467691785855616E-1 5.65323082141443835152E-5 9.93217121942747780534E-1 6.78287805725221946563E-3 9.93217121942747780534E-1 6.78287805725221946563E-3
AFR D10S1248 9.99777233236801069280E-1 2.22766763198930719537E-4 9.93316271208893620440E-1 6.68372879110637956039E-3 9.93316271208893620440E-1 6.68372879110637956039E-3
AFR D12S391 9.99943467691785855616E-1 5.65323082141443835152E-5 9.93266787826630159409E-1 6.73321217336984059149E-3 9.93266787826630159409E-1 6.73321217336984059149E-3
AFR D13S317 9.99943467691785855616E-1 5.65323082141443835152E-5 9.93217121942747780534E-1 6.78287805725221946563E-3 9.93217121942747780534E-1 6.78287805725221946563E-3
AFR D16S539 9.99777233236801069280E-1 2.22766763198930719537E-4 9.84961610220010645989E-1 1.50383897799893540109E-2 9.84961610220010645989E-1 1.50383897799893540109E-2
AFR D18S51 9.99943467691785855616E-1 5.65323082141443835152E-5 9.84738524371182506202E-1 1.52614756288174937977E-2 9.84738524371182506202E-1 1.52614756288174937977E-2
AFR D19S433 9.99777233236801069280E-1 2.22766763198930719537E-4 9.73265084835574481758E-1 2.67349151644255182415E-2 9.73265084835574481758E-1 2.67349151644255182415E-2
AFR D1S1656 9.99943467691785855616E-1 5.65323082141443835152E-5 9.98304280485686945134E-1 1.69571951431305486641E-3 9.98304280485686945134E-1 1.69571951431305486641E-3
AFR D21S11 9.99943467691785855616E-1 5.65323082141443835152E-5 9.93217121942747780534E-1 6.78287805725221946563E-3 9.93217121942747780534E-1 6.78287805725221946563E-3
AFR D22S1045 9.99943467691785855616E-1 5.65323082141443835152E-5 9.93217121942747780534E-1 6.78287805725221946563E-3 9.93217121942747780534E-1 6.78287805725221946563E-3
AFR D2S1338 9.99777233236801069280E-1 2.22766763198930719537E-4 9.73265084835574481758E-1 2.67349151644255182415E-2 9.73265084835574481758E-1 2.67349151644255182415E-2
AFR D2S441 9.99777233236801069280E-1 2.22766763198930719537E-4 9.73265084835574481758E-1 2.67349151644255182415E-2 9.73265084835574481758E-1 2.67349151644255182415E-2
AFR D3S1358 9.99943467691785855616E-1 5.65323082141443835152E-5 9.93266787826630159409E-1 6.73321217336984059149E-3 9.93266787826630159409E-1 6.73321217336984059149E-3
AFR D5S818 9.99943467691785855616E-1 5.65323082141443835152E-5 9.93217121942747780534E-1 6.78287805725221946563E-3 9.93217121942747780534E-1 6.78287805725221946563E-3
AFR D7S820 9.99943467691785855616E-1 5.65323082141443835152E-5 9.84738524371182506202E-1 1.52614756288174937977E-2 9.84738524371182506202E-1 1.52614756288174937977E-2
AFR D8S1179 9.99943467691785855616E-1 5.65323082141443835152E-5 9.84738524371182506202E-1 1.52614756288174937977E-2 9.84738524371182506202E-1 1.52614756288174937977E-2
AFR FGA 9.99943467691785855616E-1 5.65323082141443835152E-5 9.98304280485686945134E-1 1.69571951431305486641E-3 9.98304280485686945134E-1 1.69571951431305486641E-3
AFR TH01 9.99777233236801069280E-1 2.22766763198930719537E-4 9.84961610220010645989E-1 1.50383897799893540109E-2 9.84961610220010645989E-1 1.50383897799893540109E-2
AFR TPOX 9.99777233236801069280E-1 2.22766763198930719537E-4 9.84961610220010645989E-1 1.50383897799893540109E-2 9.84961610220010645989E-1 1.50383897799893540109E-2
AFR vWA 9.99943467691785855616E-1 5.65323082141443835152E-5 9.84813068822410803974E-1 1.51869311775891960257E-2 9.84813068822410803974E-1 1.51869311775891960257E-2
AFR All_loci 1.00000000000000000000E+0 8.23071958151542135332E-36 1.00000000000000000000E+0 4.38875716538970662812E-41 1.00000000000000000000E+0 4.38875716538970662812E-41
This work was sponsored in part by award 15PNIJ-21-GG-04159-RESS, awarded by the National Institute of Justice, Office of Justice Programs, U.S. Department of Justice.
Version: 1.1.0, Dec,5th,2023 Contact: [email protected]
React
Typescript
Django
Laravel
Facebook
Microsoft
Google
Alibaba
D3
Tencent