pcrsim: Simulation of the Forensic DNA Process

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Simulate the forensic DNA process: generate random or fixed DNA profiles, create forensic samples including mixtures of diploid and haploid cells, simulate DNA extraction, normalization, degradation, amplification including stutters and inter-locus balance, and capillary electrophoresis. DNA profiles are visualized as electropherograms and saved in tables. The command pcrsim() opens up a graphical user interface which allow the user to create projects, to enter, load, and save parameters required for the simulation. The simulation is transparent and the parameters used in each step of the simulation can be viewed in the result tables.

Author
Oskar Hansson
Date of publication
2016-10-03 13:13:20
Maintainer
Oskar Hansson <oskar.hansson@fhi.no>
License
GPL-2
Version
1.0.1
URLs

View on CRAN

Man pages

calculateDegradation
Calculate Degradation Parameter
calibrateLb
Calibrate Inter-locus Balance
calibratePCRsim
Calibrate PCRsim
calibrateScaling
Calibrate Peak Height Scaling
compact
Compact
compactStutter
Merge Stutters With Profile.
getParameter
Get Kit Parameters
pcrsim
GUI for PCRsim
pcrsim-package
Simulation of the Forensic DNA process
rmultinomxl
Vectorized Multinomial Distribution For Large Numbers
simCE
CE Simulator
simDegradation
DNA Degradation Simulator
simDilution
Serial Dilution Simulator
simExtraction
DNA Extraction Simulator
simNormalize
Normalization Simulator
simPCR
PCR Simulator
simProfile
DNA Profile Simulator
simSample
Forensic Sample Simulator

Files in this package

pcrsim
pcrsim/inst
pcrsim/inst/extdata
pcrsim/inst/extdata/tutorial_pc_ref.txt
pcrsim/inst/extdata/parameters.txt
pcrsim/inst/extdata/tutorial_pc_ref_pcrsim.txt
pcrsim/inst/extdata/tutorial_dil_ref.txt
pcrsim/inst/extdata/tutorial_genotypes_table.txt
pcrsim/inst/extdata/tutorial_strvalidator_project.RData
pcrsim/inst/extdata/tutorial_amount.txt
pcrsim/inst/extdata/tutorial_pcrsim_project.RData
pcrsim/NAMESPACE
pcrsim/NEWS
pcrsim/R
pcrsim/R/rmultinomxl.r
pcrsim/R/simExtraction.r
pcrsim/R/pcrsim.r
pcrsim/R/calibratePCRsim.r
pcrsim/R/simProfile.r
pcrsim/R/simNormalize.r
pcrsim/R/simPCR.r
pcrsim/R/simSample.r
pcrsim/R/calibrateScaling.r
pcrsim/R/globals.R
pcrsim/R/compactStutter.r
pcrsim/R/calibrateLb.r
pcrsim/R/hooks.r
pcrsim/R/getParameter.r
pcrsim/R/simDegradation.r
pcrsim/R/simCE.r
pcrsim/R/calculateDegradation.R
pcrsim/R/compact.r
pcrsim/R/pcrsim-package.r
pcrsim/R/simDilution.r
pcrsim/README.md
pcrsim/MD5
pcrsim/DESCRIPTION
pcrsim/man
pcrsim/man/pcrsim.Rd
pcrsim/man/simSample.Rd
pcrsim/man/compact.Rd
pcrsim/man/simPCR.Rd
pcrsim/man/calculateDegradation.Rd
pcrsim/man/calibratePCRsim.Rd
pcrsim/man/getParameter.Rd
pcrsim/man/simCE.Rd
pcrsim/man/simProfile.Rd
pcrsim/man/simNormalize.Rd
pcrsim/man/pcrsim-package.Rd
pcrsim/man/simDegradation.Rd
pcrsim/man/simExtraction.Rd
pcrsim/man/rmultinomxl.Rd
pcrsim/man/compactStutter.Rd
pcrsim/man/calibrateLb.Rd
pcrsim/man/calibrateScaling.Rd
pcrsim/man/simDilution.Rd