strvalidator: Process Control and Internal Validation of Forensic STR Kits

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An open source platform for validation and process control. Tools to analyse data from internal validation of forensic short tandem repeat (STR) kits are provided. The tools are developed to provide the necessary data to conform with guidelines for internal validation issued by the European Network of Forensic Science Institutes (ENFSI) DNA Working Group, and the Scientific Working Group on DNA Analysis Methods (SWGDAM). A front-end graphical user interface is provided. More information about each function can be found in the respective help documentation.

Author
Oskar Hansson
Date of publication
2016-10-03 23:08:42
Maintainer
Oskar Hansson <oskar.hansson@fhi.no>
License
GPL-2
Version
1.8.0
URLs

View on CRAN

Man pages

addColor
Add Color Information.
addData
Adds New Data Columns to a Data Frame
addData_gui
Add Data
addDye_gui
Add Dye Information
addMarker
Add Missing Markers.
addMarker_gui
Add Missing Markers
addSize
Add Size Information.
addSize_gui
Add Size Information
calculateAllele
Calculate Allele
calculateAllele_gui
Calculate Allele
calculateAT
Calculate Analytical Threshold
calculateAT6
Calculate Analytical Threshold
calculateAT6_gui
Calculate Analytical Threshold
calculateAT_gui
Calculate Analytical Threshold
calculateCapillary
Calculate Capillary Balance
calculateCapillary_gui
Calculate Capillary Balance
calculateConcordance
Calculate Concordance.
calculateConcordance_gui
Calculate Concordance
calculateCopies
Calculate Allele Copies
calculateCopies_gui
Calculate Allele Copies
calculateDropout
Calculate Drop-out Events
calculateDropout_gui
Calculate Dropout Events
calculateHb
Calculate Heterozygote Balance
calculateHb_gui
Calculate Heterozygote Balance
calculateHeight
Calculate Peak Height.
calculateHeight_gui
Calculate Peak Height
calculateLb
Calculate Inter-locus Balance
calculateLb_gui
Calculate Locus Balance
calculateMixture
Calculate Mixture.
calculateMixture_gui
Calculate Mixture
calculateOL
Analyse Off-ladder Alleles
calculateOL_gui
Analyse Off-ladder Alleles
calculateOverlap
Calculate Bins Overlap
calculateOverlap_gui
Calculate Bins Overlap
calculatePeaks
Calculate Peaks
calculatePeaks_gui
Calculate Peaks
calculatePullup
Calculate Spectral Pull-up
calculatePullup_gui
Calculate Spectral Pull-up
calculateRatio
Calculate Ratio
calculateRatio_gui
Calculate Ratio
calculateResultType
Calculate Result Type
calculateResultType_gui
Calculate Result Type
calculateSlope
Calculate Profile Slope.
calculateSlope_gui
Calculate Profile Slope
calculateSpike
Detect Spike
calculateSpike_gui
Detect Spike
calculateStutter
Calculate Stutter
calculateStutter_gui
Calculate Stutter
checkDataset
Check Dataset
checkSubset
Check Subset
checkSubset_gui
Check Subset
colConvert
Convert Columns
colNames
Column Names
columns
Column Actions
columns_gui
Column Actions
combineBinsAndPanels
Combine Bins And Panels Files.
combine_gui
Combine Datasets
cropData_gui
Crop Or Replace
detectKit
Detect Kit
editData_gui
Edit or View Data Frames
export
Export
export_gui
Export
filterProfile
Filter Profile
filterProfile_gui
Filter Profile
generateEPG
Generate EPG
generateEPG_gui
Generate EPG
getDb
Get Allele Frequency Database
getKit
Get Kit
ggsave_gui
Save Image
guessProfile
Guess Profile
guessProfile_gui
Guess Profile
heightToPeak
Height To Peak.
import
Import Data
import_gui
Import Data
listObjects
List Objects
makeKit_gui
Make Kit
maskAT
Mask And Prepare Data To Analyze Analytical Threshold
modelDropout_gui
Model And Plot Drop-out Events
plotAT_gui
Plot Analytical Threshold
plotBalance_gui
Plot Balance
plotCapillary_gui
Plot Capillary Balance
plotContamination_gui
Plot Contamination
plotDistribution_gui
Plot Distribution
plotDropout_gui
Plot Drop-out Events
plotKit_gui
Plot Kit Marker Ranges
plotPeaks_gui
Plot Peaks
plotPrecision_gui
Plot Precision
plotPullup_gui
Plot Pull-up
plotRatio_gui
Plot Ratio
plotResultType_gui
Plot Result Type
plotSlope_gui
Plot Profile Slope
plotStutter_gui
Plot Stutter
readBinsFile
Read Bins file
readPanelsFile
Read Panels File
ref1
ESX17 Positive Control Profile
ref11
ESX17 Positive Control Profile
ref2
SGMPlus example data
ref3
ESX17 example data for dropout analysis.
ref4
ESX17 example data for dropout analysis.
ref51
ESX17 example data for mixture analysis.
ref52
ESX17 example data for mixture analysis.
ref61
Fusion example data for dropout analysis.
ref62
Fusion example data for dropout analysis.
ref7
ESSplex SE QS example data for inhibition analysis.
removeArtefact
Remove Artefacts
removeArtefact_gui
Remove Artefact
removeSpike
Remove Spikes
removeSpike_gui
Remove Spike
saveObject
Save Object
scrambleAlleles
Scramble Alleles
set1
Typing data in 'GeneMapper' format
set2
SGMPlus example data
set3
ESX17 example data for dropout analysis.
set4
ESX17 example data for dropout analysis.
set5
ESX17 example data for mixture analysis.
set6
Fusion example data for dropout analysis.
set7
ESSplex SE QS example data for inhibition analysis.
slim
Slim Data Frames
slim_gui
Slim Data Frames
sortMarker
Sort Markers
strvalidator
Graphical User Interface For The STR-validator Package
strvalidator-package
Process Control and Internal Validation of Forensic STR Kits
tableBalance
Table Balance
tableBalance_gui
Table Balance
tableCapillary
Table Capillary
tableCapillary_gui
Table Capillary
tablePrecision
Calculate Precision
tablePrecision_gui
Table Precision
tableStutter
Table Stutter
tableStutter_gui
Table Stutter
trim
Trim Data
trim_gui
Trim Data

Files in this package

strvalidator
strvalidator/inst
strvalidator/inst/CITATION
strvalidator/inst/extdata
strvalidator/inst/extdata/set3.txt
strvalidator/inst/extdata/database_readme.txt
strvalidator/inst/extdata/database.txt
strvalidator/inst/extdata/ils.txt
strvalidator/inst/extdata/kit.txt
strvalidator/inst/extdata/ref3.txt
strvalidator/tests
strvalidator/tests/testthat.R
strvalidator/tests/testthat
strvalidator/tests/testthat/test-trim.r
strvalidator/tests/testthat/test-calculateStutter.r
strvalidator/tests/testthat/test-calculateMixture.r
strvalidator/tests/testthat/test-calculateLb.r
strvalidator/tests/testthat/test-tableBalance.r
strvalidator/tests/testthat/test-calculateHb.r
strvalidator/tests/testthat/test-calculateHeight.r
strvalidator/tests/testthat/test-heightToPeak.r
strvalidator/tests/testthat/test-addSize.r
strvalidator/tests/testthat/test-filterProfile.r
strvalidator/tests/testthat/test-calculateDropout.r
strvalidator/tests/testthat/test-calculateConcordance.r
strvalidator/tests/testthat/test-calculateOL.r
strvalidator/NAMESPACE
strvalidator/NEWS
strvalidator/data
strvalidator/data/ref62.RData
strvalidator/data/ref1.RData
strvalidator/data/ref61.RData
strvalidator/data/set2.RData
strvalidator/data/set6.RData
strvalidator/data/ref7.RData
strvalidator/data/set5.RData
strvalidator/data/ref51.RData
strvalidator/data/set7.RData
strvalidator/data/ref2.RData
strvalidator/data/ref11.RData
strvalidator/data/set4.RData
strvalidator/data/ref4.RData
strvalidator/data/ref52.RData
strvalidator/data/set1.RData
strvalidator/R
strvalidator/R/plotBalance_gui.r
strvalidator/R/calculateCopies.r
strvalidator/R/plotKit_gui.r
strvalidator/R/calculateResultType_gui.r
strvalidator/R/tableBalance_gui.r
strvalidator/R/plotDistribution_gui.r
strvalidator/R/checkSubset.r
strvalidator/R/strvalidator.r
strvalidator/R/calculateMixture_gui.r
strvalidator/R/addData_gui.r
strvalidator/R/calculatePullup.r
strvalidator/R/removeArtefact_gui.r
strvalidator/R/removeArtefact.r
strvalidator/R/maskAT.r
strvalidator/R/export.r
strvalidator/R/columns_gui.r
strvalidator/R/calculateRatio.r
strvalidator/R/calculateSpike.r
strvalidator/R/getKit.r
strvalidator/R/detectKit.r
strvalidator/R/addDye_gui.r
strvalidator/R/saveObject.r
strvalidator/R/calculateSlope.r
strvalidator/R/calculateMixture.r
strvalidator/R/plotPrecision_gui.r
strvalidator/R/calculateLb.r
strvalidator/R/calculateAT6_gui.r
strvalidator/R/tableStutter_gui.r
strvalidator/R/checkSubset_gui.r
strvalidator/R/calculatePeaks.r
strvalidator/R/plotPeaks_gui.r
strvalidator/R/readPanelsFile.r
strvalidator/R/combine_gui.r
strvalidator/R/calculateConcordance_gui.r
strvalidator/R/guessProfile.r
strvalidator/R/calculateSpike_gui.r
strvalidator/R/modelDropout_gui.r
strvalidator/R/calculateAT6.r
strvalidator/R/calculateHeight.r
strvalidator/R/plotResultType_gui.r
strvalidator/R/tablePrecision.r
strvalidator/R/calculateOverlap.r
strvalidator/R/tableCapillary.r
strvalidator/R/trim_gui.r
strvalidator/R/plotCapillary_gui.r
strvalidator/R/strvalidator-package.r
strvalidator/R/calculateAllele_gui.r
strvalidator/R/globals.R
strvalidator/R/calculateCapillary.r
strvalidator/R/plotAT_gui.r
strvalidator/R/addSize.r
strvalidator/R/import.r
strvalidator/R/removeSpike_gui.r
strvalidator/R/generateEPG_gui.r
strvalidator/R/calculateStutter_gui.r
strvalidator/R/calculateCapillary_gui.r
strvalidator/R/makeKit_gui.r
strvalidator/R/ggsave_gui.r
strvalidator/R/filterProfile.r
strvalidator/R/import_gui.r
strvalidator/R/readBinsFile.r
strvalidator/R/plotContamination_gui.r
strvalidator/R/calculateHb_gui.r
strvalidator/R/tableStutter.r
strvalidator/R/calculateAllele.r
strvalidator/R/export_gui.r
strvalidator/R/calculatePullup_gui.r
strvalidator/R/calculateCopies_gui.r
strvalidator/R/addColor.r
strvalidator/R/calculateSlope_gui.r
strvalidator/R/checkDataset.r
strvalidator/R/guessProfile_gui.r
strvalidator/R/slim_gui.r
strvalidator/R/plotDropout_gui.r
strvalidator/R/slim.r
strvalidator/R/calculateLb_gui.r
strvalidator/R/combineBinsAndPanels.r
strvalidator/R/colConvert.r
strvalidator/R/calculateStutter.r
strvalidator/R/removeSpike.r
strvalidator/R/calculateAT.r
strvalidator/R/generateEPG.r
strvalidator/R/listObjects.r
strvalidator/R/calculateDropout_gui.r
strvalidator/R/addMarker.r
strvalidator/R/hooks.r
strvalidator/R/calculateDropout.r
strvalidator/R/plotStutter_gui.r
strvalidator/R/sortMarker.r
strvalidator/R/addSize_gui.r
strvalidator/R/calculateHb.r
strvalidator/R/colNames.r
strvalidator/R/trim.r
strvalidator/R/editData_gui.r
strvalidator/R/calculateAT_gui.r
strvalidator/R/tableCapillary_gui.r
strvalidator/R/heightToPeak.r
strvalidator/R/calculateResultType.r
strvalidator/R/calculatePeaks_gui.r
strvalidator/R/plotPullup_gui.r
strvalidator/R/getDb.r
strvalidator/R/calculateConcordance.r
strvalidator/R/plotRatio_gui.r
strvalidator/R/scrambleAlleles.r
strvalidator/R/calculateOL.r
strvalidator/R/addData.r
strvalidator/R/calculateOL_gui.r
strvalidator/R/cropData_gui.r
strvalidator/R/tableBalance.r
strvalidator/R/addMarker_gui.r
strvalidator/R/columns.r
strvalidator/R/calculateRatio_gui.r
strvalidator/R/plotSlope_gui.r
strvalidator/R/calculateOverlap_gui.r
strvalidator/R/filterProfile_gui.r
strvalidator/R/tablePrecision_gui.r
strvalidator/R/calculateHeight_gui.r
strvalidator/README.md
strvalidator/MD5
strvalidator/DESCRIPTION
strvalidator/man
strvalidator/man/calculateStutter.Rd
strvalidator/man/set7.Rd
strvalidator/man/ref62.Rd
strvalidator/man/tableStutter.Rd
strvalidator/man/calculateRatio.Rd
strvalidator/man/removeSpike.Rd
strvalidator/man/calculateHeight_gui.Rd
strvalidator/man/modelDropout_gui.Rd
strvalidator/man/maskAT.Rd
strvalidator/man/set3.Rd
strvalidator/man/guessProfile.Rd
strvalidator/man/plotContamination_gui.Rd
strvalidator/man/calculateRatio_gui.Rd
strvalidator/man/listObjects.Rd
strvalidator/man/plotPullup_gui.Rd
strvalidator/man/calculateCapillary.Rd
strvalidator/man/addMarker_gui.Rd
strvalidator/man/checkSubset_gui.Rd
strvalidator/man/editData_gui.Rd
strvalidator/man/tablePrecision_gui.Rd
strvalidator/man/calculateConcordance.Rd
strvalidator/man/removeArtefact.Rd
strvalidator/man/tableBalance_gui.Rd
strvalidator/man/addSize_gui.Rd
strvalidator/man/addColor.Rd
strvalidator/man/set6.Rd
strvalidator/man/ref3.Rd
strvalidator/man/columns.Rd
strvalidator/man/tableCapillary.Rd
strvalidator/man/scrambleAlleles.Rd
strvalidator/man/slim_gui.Rd
strvalidator/man/calculateHb.Rd
strvalidator/man/addData_gui.Rd
strvalidator/man/removeSpike_gui.Rd
strvalidator/man/columns_gui.Rd
strvalidator/man/colNames.Rd
strvalidator/man/strvalidator-package.Rd
strvalidator/man/import_gui.Rd
strvalidator/man/plotKit_gui.Rd
strvalidator/man/set5.Rd
strvalidator/man/colConvert.Rd
strvalidator/man/plotDropout_gui.Rd
strvalidator/man/plotBalance_gui.Rd
strvalidator/man/slim.Rd
strvalidator/man/guessProfile_gui.Rd
strvalidator/man/plotStutter_gui.Rd
strvalidator/man/plotResultType_gui.Rd
strvalidator/man/readBinsFile.Rd
strvalidator/man/import.Rd
strvalidator/man/calculateSpike_gui.Rd
strvalidator/man/filterProfile_gui.Rd
strvalidator/man/calculateAllele_gui.Rd
strvalidator/man/plotPeaks_gui.Rd
strvalidator/man/calculatePullup.Rd
strvalidator/man/tablePrecision.Rd
strvalidator/man/plotAT_gui.Rd
strvalidator/man/calculateAllele.Rd
strvalidator/man/combine_gui.Rd
strvalidator/man/export.Rd
strvalidator/man/calculateAT.Rd
strvalidator/man/strvalidator.Rd
strvalidator/man/plotPrecision_gui.Rd
strvalidator/man/plotCapillary_gui.Rd
strvalidator/man/getDb.Rd
strvalidator/man/calculateResultType_gui.Rd
strvalidator/man/ggsave_gui.Rd
strvalidator/man/ref1.Rd
strvalidator/man/calculatePeaks.Rd
strvalidator/man/ref51.Rd
strvalidator/man/calculateStutter_gui.Rd
strvalidator/man/readPanelsFile.Rd
strvalidator/man/calculatePeaks_gui.Rd
strvalidator/man/addMarker.Rd
strvalidator/man/sortMarker.Rd
strvalidator/man/checkSubset.Rd
strvalidator/man/tableCapillary_gui.Rd
strvalidator/man/plotSlope_gui.Rd
strvalidator/man/makeKit_gui.Rd
strvalidator/man/ref4.Rd
strvalidator/man/addDye_gui.Rd
strvalidator/man/calculateOL_gui.Rd
strvalidator/man/detectKit.Rd
strvalidator/man/calculateHeight.Rd
strvalidator/man/calculateCopies_gui.Rd
strvalidator/man/set2.Rd
strvalidator/man/calculateAT_gui.Rd
strvalidator/man/ref7.Rd
strvalidator/man/combineBinsAndPanels.Rd
strvalidator/man/calculateLb.Rd
strvalidator/man/calculateOL.Rd
strvalidator/man/calculateOverlap.Rd
strvalidator/man/plotDistribution_gui.Rd
strvalidator/man/trim.Rd
strvalidator/man/saveObject.Rd
strvalidator/man/calculateResultType.Rd
strvalidator/man/cropData_gui.Rd
strvalidator/man/calculateAT6.Rd
strvalidator/man/plotRatio_gui.Rd
strvalidator/man/tableBalance.Rd
strvalidator/man/calculateSlope.Rd
strvalidator/man/filterProfile.Rd
strvalidator/man/getKit.Rd
strvalidator/man/heightToPeak.Rd
strvalidator/man/calculateMixture.Rd
strvalidator/man/calculateDropout_gui.Rd
strvalidator/man/set4.Rd
strvalidator/man/calculateCopies.Rd
strvalidator/man/set1.Rd
strvalidator/man/addSize.Rd
strvalidator/man/checkDataset.Rd
strvalidator/man/calculateAT6_gui.Rd
strvalidator/man/removeArtefact_gui.Rd
strvalidator/man/generateEPG_gui.Rd
strvalidator/man/export_gui.Rd
strvalidator/man/addData.Rd
strvalidator/man/calculateSpike.Rd
strvalidator/man/calculateLb_gui.Rd
strvalidator/man/trim_gui.Rd
strvalidator/man/calculateSlope_gui.Rd
strvalidator/man/calculateOverlap_gui.Rd
strvalidator/man/generateEPG.Rd
strvalidator/man/calculateConcordance_gui.Rd
strvalidator/man/tableStutter_gui.Rd
strvalidator/man/ref52.Rd
strvalidator/man/calculateCapillary_gui.Rd
strvalidator/man/calculatePullup_gui.Rd
strvalidator/man/ref11.Rd
strvalidator/man/calculateMixture_gui.Rd
strvalidator/man/calculateHb_gui.Rd
strvalidator/man/ref61.Rd
strvalidator/man/calculateDropout.Rd
strvalidator/man/ref2.Rd