testassay: A Hypothesis Testing Framework for Validating an Assay for Precision
Version 0.1.0

A common way of validating a biological assay for is through a procedure, where m levels of an analyte are measured with n replicates at each level, and if all m estimates of the coefficient of variation (CV) are less than some prespecified level, then the assay is declared validated for precision within the range of the m analyte levels. Two limitations of this procedure are: there is no clear statistical statement of precision upon passing, and it is unclear how to modify the procedure for assays with constant standard deviation. We provide tools to convert such a procedure into a set of m hypothesis tests. This reframing motivates the m:n:q procedure, which upon completion delivers a 100q% upper confidence limit on the CV. Additionally, for a post-validation assay output of y, the method gives an ``effective standard deviation interval'' of log(y) plus or minus r, which is a 68% confidence interval on log(mu), where mu is the expected value of the assay output for that sample. Further, the m:n:q procedure can be straightforwardly applied to constant standard deviation assays. We illustrate these tools by applying them to a growth inhibition assay.

AuthorMichael C Sachs and Michael P Fay
Date of publication2016-11-29 18:10:38
MaintainerMichael C Sachs <sachsmc@gmail.com>
LicenseMIT + file LICENSE
Version0.1.0
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("testassay")

Getting started

README.md
Validation of Growth Inhibition Assay using `testassay`"

Popular man pages

gia: Growth Inhibition Assay
lognormConstCVCI: log-normal constant CV model
normConstCVCI: Log-centered confidence intervals from a Normal constant...
predict.assaytest: Construct effective standard deviation intervals for observed...
print.assaytest: Print the results of an assaytest
testassay: Hypothesis testing procedure for assay validation for...
See all...

All man pages Function index File listing

Man pages

gia: Growth Inhibition Assay
lognormConstCVCI: log-normal constant CV model
normConstCVCI: Log-centered confidence intervals from a Normal constant...
predict.assaytest: Construct effective standard deviation intervals for observed...
print.assaytest: Print the results of an assaytest
testassay: Hypothesis testing procedure for assay validation for...

Functions

gia Man page
lognormConstCVCI Man page Source code
normConstCVCI Man page Source code
predict.assaytest Man page Source code
print.assaytest Man page Source code
testassay Man page Source code

Files

inst
inst/doc
inst/doc/GIAValidationExample.Rmd
inst/doc/GIAValidationExample.R
inst/doc/GIAValidationExample.html
NAMESPACE
NEWS
data
data/gia.rda
R
R/testassay.R
vignettes
vignettes/refs.bib
vignettes/GIAValidationExample.Rmd
README.md
MD5
build
build/vignette.rds
DESCRIPTION
man
man/lognormConstCVCI.Rd
man/predict.assaytest.Rd
man/testassay.Rd
man/print.assaytest.Rd
man/normConstCVCI.Rd
man/gia.Rd
LICENSE
testassay documentation built on May 19, 2017, 11:04 p.m.

Questions? Problems? Suggestions? Tweet to @rdrrHQ or email at ian@mutexlabs.com.

Please suggest features or report bugs in the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.