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strvalidator

strvalidator is a package developed for validation and process control of methods and instruments in a forensic genetic laboratory. The graphical user interface STR-validator make it easy to analyse data in accordance with European Network of Forensic Science Institutes (ENFSI) and Scientific Working Group on DNA Analysis Methods (SWGDAM) validation guidelines.

In order to assure correct results, most of the core functions are extensively validated using the 'testthat' package before a new version is released (see STR-validator webpage for details).

STR-validator is a product of the PhD work performed by Oskar Hansson (thesis available at the STR-validator website), which was partly funded by the European Union seventh Framework Programme (FP7/2007-2013) under grant agreement no 285487 (EUROFORGEN-NoE).

Please cite STR-validator as: Hansson O, Gill P, Egeland T (2014). "STR-validator: An open source platform for validation and process control" Forensic Science International: Genetics, 13, 154-166. doi: 10.1016/j.fsigen.2014.07.009

Contributions to the strvalidator package or user community is more than welcome. Contact the developer to:

improve existing functionality or add new
translate course material, manuals, or tutorial
collaborate to implement new functions
add tests to validate functions

Created and maintained by: Oskar Hansson, Forensic Genetics (Oslo University Hospital, Norway)

More information can be found at: https://sites.google.com/site/forensicapps/strvalidator

Info and user community at Facebook: https://www.facebook.com/pages/STR-validator/240891279451450?ref=tn_tnmn https://www.facebook.com/groups/strvalidator/

The source code is hosted at GitHub: https://github.com/OskarHansson/strvalidator

Please report bugs to: https://github.com/OskarHansson/strvalidator/issues

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Version

Install

install.packages('strvalidator')

Monthly Downloads

368

Version

2.4.1

License

GPL-2

Maintainer

Oskar Hansson

Last Published

July 16th, 2023

Functions in strvalidator (2.4.1)

Add Size Information.

Add Missing Markers

Log Audit Trail.

Adds New Data Columns to a Data Frame

Add Marker Order.

calculateCapillary

Calculate Capillary Balance

Calculate Analytical Threshold

calculateAllT_gui

Calculate Stochastic Thresholds

calculateAT6_gui

Calculate Analytical Threshold

Calculate Stochastic Thresholds

calculateAllele

Calculate Allele

calculateCapillary_gui

Calculate Capillary Balance

calculateAT_gui

Calculate Analytical Threshold

calculateAllele_gui

Calculate Allele

calculateHeight

Calculate Peak Height.

Calculate Analytical Threshold

Calculate Heterozygote Balance

calculateDropout

Calculate Drop-out Events

calculateHb_gui

Calculate Heterozygote Balance

calculateCopies_gui

Calculate Allele Copies

calculateCopies

Calculate Allele Copies

calculateConcordance

Calculate Concordance.

Calculate Peaks

calculateOverlap

Calculate Bins Overlap

calculateConcordance_gui

Calculate Concordance

calculateOverlap_gui

Calculate Bins Overlap

calculateHeight_gui

Calculate Peak Height

calculatePeaks_gui

Calculate Peaks

calculateSlope_gui

Calculate Profile Slope

Calculate Profile Slope.

calculateSpike_gui

calculateMixture

Calculate Mixture.

calculatePullup_gui

Calculate Spectral Pull-up

calculatePullup

Calculate Spectral Pull-up

calculateMixture_gui

Calculate Mixture

Calculate Stochastic Threshold

Calculate Inter-locus Balance

calculateDropout_gui

Calculate Dropout Events

calculateResultType

Calculate Result Type

calculateLb_gui

Calculate Locus Balance

Edit or View Data Frames

calculateResultType_gui

Calculate Result Type

combineBinsAndPanels

Combine Bins And Panels Files.

calculateOL_gui

Analyze Off-ladder Alleles

Analyze Off-ladder Alleles

Convert Columns

Combine Datasets

Crop Or Replace

Get Language Strings

calculateRatio_gui

Calculate Ratio

Calculate Ratio

calculateStatistics

Summary Statistics

calculateStatistics_gui

Calculate Statistics

Height To Peak.

Mask And Prepare Data To Analyze Analytical Threshold

guessProfile_gui

ESX17 example data for dropout analysis.

checkSubset_gui

generateEPG_gui

Get Allele Frequency Database

ESX17 example data for mixture analysis.

modelDropout_gui

Model And Plot Drop-out Events

plotDropout_gui

Plot Drop-out Events

Remove Artefacts

Plot Empirical Cumulative Distributions

removeArtefact_gui

Remove Artefact

Graphical User Interface For The STR-validator Package

Plot Kit Marker Ranges

Plot Analytical Threshold

SGMPlus example data

plotResultType_gui

Plot Result Type

Plot Profile Slope

plotContamination_gui

Plot Contamination

Slim Data Frames

ESX17 example data for dropout analysis.

calculateStutter

Calculate Stutter

ESX17 example data for mixture analysis.

Fusion example data for dropout analysis.

Slim Data Frames

calculateStutter_gui

Calculate Stutter

ESSplex SE QS example data for inhibition analysis.

plotStutter_gui

removeSpike_gui

plotBalance_gui

filterProfile_gui

plotCapillary_gui

Plot Capillary Balance

ESX17 example data for dropout analysis.

plotDistribution_gui

Plot Distribution

plotPrecision_gui

Read Panels File

scrambleAlleles

Scramble Alleles

Typing data in 'GeneMapper' format

ESSplex SE QS example data for inhibition analysis.

ESX17 example data for mixture analysis.

ESX17 Positive Control Profile

ESX17 Positive Control Profile

Fusion example data for dropout analysis.

sample_tableToList

sample_tableToList

Fusion example data for dropout analysis.

ESX17 example data for dropout analysis.

SGMPlus example data

strvalidator-package

Process Control and Internal Validation of Forensic STR Kits

Add Color Information.

Add Size Information

Add Missing Markers.

Add Dye Information