Package: forensim 4.3.3

forensim: Interpretation of Forensic DNA Mixtures

Statistical methods and simulation tools for the interpretation of forensic DNA mixtures. The methods implemented are described in Haned et al. (2011) <doi:10.1111/j.1556-4029.2010.01550.x>, Haned et al. (2012) <doi:10.1016/j.fsigen.2012.11.002> and Gill & Haned (2013) <doi:10.1016/j.fsigen.2012.08.008>.

Authors:Hinda Haned [aut], Oyvind Bleka [ctb], Maarten Kruijver [cre]

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forensim.pdf |forensim.html✨
forensim/json (API)
NEWS

# Install 'forensim' in R:
install.packages('forensim', repos = c('https://mkruijver.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/mkruijver/forensim/issues

Datasets:
  • ngm - Allele frequencies for the new generation markers NGM, for the Caucasian US population
  • sgmNorway - Allele frequencies for the new generation markers sgm, for the Norwegian population
  • strusa - Allele frequencies for 15 autosomal short tandem repeats core loci on U.S. Caucasian, African American, and Hispanic populations.
  • strveneto - Population study of three miniSTR loci in Veneto
  • Tu - Allele frequencies of 15 autosomal short tandem repeats loci on Chinese Tu ethnic minority group

On CRAN:

Conda:

3.08 score 12 scripts 693 downloads 1 mentions 40 exports 2 dependencies

Last updated from:63c8d4eb85. Checks:13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64OK132
linux-devel-x86_64OK124
source / vignettesOK168
linux-release-arm64OK128
linux-release-x86_64OK134
macos-release-arm64OK142
macos-release-x86_64OK275
macos-oldrel-arm64OK168
macos-oldrel-x86_64OK311
windows-develOK89
windows-releaseOK91
windows-oldrelOK92
wasm-releaseOK101

Exports:A2.simuA3.simuA4.simuas.simugenoas.simumixas.tabfreqchangepopCmncombdataLfindfreqfindmaxHbsimuis.simugenois.simumixis.tabfreqliklik.loclikestimlikestim.loclikEvidLRLRmixTKmastermixmincontriN2errorN2ExactnaomitabnballPEPVsimMixSNPsimPCR2simPCR2TKsimufreqDsimugenosimumixsimupopDtabfreqwrapdataL

Dependencies:tcltk2tkrplot

Readme and manuals

Help Manual

Help pageTopics
The forensim packageforensim-package forensim
A Tcl/Tk graphical user interface for simple DNA mixtures resolution using allele peak heights or areas information when two alleles are observed at a given locusA2.simu
A Tcl/Tk graphical user interface for simple DNA mixtures resolution using allele peak heights or areas when three alleles are observed at a given locusA3.simu
A Tcl/Tk graphical user interface for simple DNA mixtures resolution using allele peak heights or areas when four alleles are observed at a given locusA4.simu
Accessors for forensim objects$,simugeno-method $,simumix-method $,tabfreq-method $<-,simugeno-method $<-,simumix-method $<-,tabfreq-method
Function to change population-related information in forensim objectschangepop
The number of all possible combinations of m elements among n with repetitionsCmn
Generate all possible combinations of m elements among n with repetitionscomb
Generic formula of the likelihood of the observed alleles in a mixture conditional on the number of contributors for a specific locusdataL
Finds the allele frequencies of a mixture from a tabfreq objectfindfreq
Function to find the maximum of a vector and its positionfindmax
A Tcl/Tk simulator of the heterozygous balanceHbsimu
Likelihood of the observed alleles at different loci in a DNA mixture conditional on the number of contributors to the mixturelik
Likelihood per locus of the observed alleles in a DNA mixture conditional on the number of contributors to the mixturelik.loc
Maximum likelihood estimation of the number of contributors to a forensic DNA mixture for a set of locilikestim
Maximum likelihood estimation per locus of the number of contributors to forensic DNA mixtures.likestim.loc
Likelihood of DNA evidence conditioned on a given hypothesislikEvid
Likelihood ratio for DNA evidence interpretation (2): a sophistacted version of function LR()LR
GUI for the LR functionLRmixTK
A Tcl/Tk graphical user interface for simple DNA mixtures resolution using allele peak heights/ or areas informationmastermix
Minimum number of contributors required to explain a forensic DNA mixturemincontri
Calculates exact error for maximum allele count for two markersN2error
Calculates exact allele distribution for 2 contributorsN2Exact
Handling of missing values in a data framenaomitab
Number of alleles in a mixturenball
Allele frequencies for the new generation markers NGM, for the Caucasian US populationngm
The random man exclusion probabilityPE
Predictive value of the maximum likelihood estimator of the number of contributors to a DNA mixturePV
Allele frequencies for the new generation markers sgm, for the Norwegian populationsgmNorway
Simulates SNP mixturessimMixSNP
Polymorphism chain reaction simulation modelsimPCR2
A Tcl/Tk graphical interface for the polymorphism chain reaction simulation modelsimPCR2TK
Function to simulate allele frequencies for independent loci from a Dirichlet modelsimufreqD
forensim class for simluated genotypesnames,simugeno-method print,simugeno-method show,simugeno-method simugeno-class
simugeno constructoras.simugeno is.simugeno simugeno simugeno-methods
forensim class for DNA mixturesnames,simumix-method print,simumix-method show,simumix-method simumix-class
simumix constructoras.simumix is.simumix simumix simumix-methods
Simulate multi-population allele frequencies for independent loci from a reference population, following a Dirichlet modelsimupopD
Allele frequencies for 15 autosomal short tandem repeats core loci on U.S. Caucasian, African American, and Hispanic populations.strusa
Population study of three miniSTR loci in Veneto (Italy)strveneto
forensim class for population allele frequenciesnames,tabfreq-method print,tabfreq-method show,tabfreq-method tabfreq-class
tabfreq constructoras.tabfreq is.tabfreq tabfreq tabfreq-methods
Allele frequencies of 15 autosomal short tandem repeats loci on Chinese Tu ethnic minority groupTu
Virtual classes for forensimcharacterOrNULL-class factorOrNULL-class listOrdataframe-class matrixOrdataframe-class vectorOrdataframe-class vectorOrNULL-class
ML estimate of number of contributors for SNPswrapdataL