miRcomp: Tools to assess and compare miRNA expression estimatation methods

Based on a large miRNA dilution study, this package provides tools to read in the raw amplification data and use these data to assess the performance of methods that estimate expression from the amplification curves.

Author
Matthew N. McCall <mccallm@gmail.com>, Lauren Kemperman <lkemperm@u.rochester.edu>
Date of publication
None
Maintainer
Matthew N. McCall <mccallm@gmail.com>
License
GPL-3 | file LICENSE
Version
1.4.0

View on Bioconductor

Man pages

accuracy
Assess the accuracy of the expression estimates
completeFeatures
Determine the Number of Completely Observed Features
expressionComp
Compare expression estimates between two methods
lifetech
The processed data generated using the LifeTech software.
limitOfDetection
Assess the limit of detection of a given method
miRcompShinyApp
Launch a Shiny app to use the miRcomp package interactively
precision
Assess the precision of the expression estimates
qpcRb4
The processed data generated using the 4 parameter sigmoidal...
qpcRb5
The processed data generated using the 5 parameter sigmodial...
qpcRdefault
The processed data generated using the default method (4...
qpcRl5
The processed data generated using the 5 parameter...
qpcRlinexp
The processed data generated using the linear-exponential...
qualityAssessment
Quality Assessment for MicroRNA Expression Estimates
titrationResponse
Assess monotone signal across titration

Files in this package

miRcomp/DESCRIPTION
miRcomp/LICENSE
miRcomp/NAMESPACE
miRcomp/R
miRcomp/R/accuracy.R
miRcomp/R/checkObject.R
miRcomp/R/completeFeatures.R
miRcomp/R/expressionComp.R
miRcomp/R/limitOfDetection.R
miRcomp/R/miRcompShinyApp.R
miRcomp/R/precision.R
miRcomp/R/qualityAssessment.R
miRcomp/R/titrationResponse.R
miRcomp/build
miRcomp/build/vignette.rds
miRcomp/data
miRcomp/data/datalist
miRcomp/data/lifetech.rda
miRcomp/data/qpcRb4.rda
miRcomp/data/qpcRb5.rda
miRcomp/data/qpcRdefault.rda
miRcomp/data/qpcRl5.rda
miRcomp/data/qpcRlinexp.rda
miRcomp/inst
miRcomp/inst/CITATION
miRcomp/inst/NEWS.Rd
miRcomp/inst/doc
miRcomp/inst/doc/miRcomp.R
miRcomp/inst/doc/miRcomp.Rmd
miRcomp/inst/doc/miRcomp.html
miRcomp/inst/shinyapp
miRcomp/inst/shinyapp/app.R
miRcomp/inst/unitTests
miRcomp/inst/unitTests/test_accuracy.R
miRcomp/inst/unitTests/test_completeFeatures.R
miRcomp/inst/unitTests/test_limitOfDetection.R
miRcomp/inst/unitTests/test_precision.R
miRcomp/inst/unitTests/test_titrationResponse.R
miRcomp/man
miRcomp/man/accuracy.Rd
miRcomp/man/completeFeatures.Rd
miRcomp/man/expressionComp.Rd
miRcomp/man/lifetech.Rd
miRcomp/man/limitOfDetection.Rd
miRcomp/man/miRcompShinyApp.Rd
miRcomp/man/precision.Rd
miRcomp/man/qpcRb4.Rd
miRcomp/man/qpcRb5.Rd
miRcomp/man/qpcRdefault.Rd
miRcomp/man/qpcRl5.Rd
miRcomp/man/qpcRlinexp.Rd
miRcomp/man/qualityAssessment.Rd
miRcomp/man/titrationResponse.Rd
miRcomp/tests
miRcomp/tests/runTests.R
miRcomp/vignettes
miRcomp/vignettes/design.png
miRcomp/vignettes/miRcomp.Rmd