Package: miRcomp 1.43.0

Matthew N. McCall

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.

Authors:Matthew N. McCall <[email protected]>, Lauren Kemperman <[email protected]>

miRcomp_1.43.0.tar.gz
miRcomp_1.43.0.zip(r-4.7)miRcomp_1.43.0.zip(r-4.6)miRcomp_1.43.0.zip(r-4.5)
miRcomp_1.43.0.tgz(r-4.6-any)miRcomp_1.43.0.tgz(r-4.5-any)
miRcomp_1.43.0.tar.gz(r-4.7-any)miRcomp_1.43.0.tar.gz(r-4.6-any)
miRcomp_1.43.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
miRcomp/json (API)

# Install 'miRcomp' in R:

install.packages('miRcomp', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

lifetech - The processed data generated using the LifeTech software.
qpcRb4 - The processed data generated using the 4 parameter sigmoidal method from the qpcR software.
qpcRb5 - The processed data generated using the 5 parameter sigmodial method from the qpcR software.
qpcRdefault - The processed data generated using the default method (4 parameter log-logistic) implemented in the qpcR software package.
qpcRl5 - The processed data generated using the 5 parameter log-logistic method from the qpcR software.
qpcRlinexp - The processed data generated using the linear-exponential method implemented in the qpcR software package.

On BioConductor:miRcomp-1.43.0(bioc 3.24)miRcomp-1.42.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

software qpcr preprocessing qualitycontrol

3.30 score 2 scripts 1 mentions 8 exports 5 dependencies

Last updated from:7ccf6a0476. Checks:1 ERROR, 9 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	159
linux-devel-x86_64	OK	151
source / vignettes	OK	169
linux-release-x86_64	OK	145
macos-release-arm64	OK	105
macos-oldrel-arm64	OK	111
windows-devel	OK	84
windows-release	OK	88
windows-oldrel	OK	87
wasm-release	OK	140

Exports:accuracy completeFeatures expressionComp limitOfDetection miRcompShinyApp precision qualityAssessment titrationResponse

Dependencies:Biobase BiocGenerics generics KernSmooth miRcompData

Assessment and comparison of miRNA expression estimation methods (miRcomp)

Rendered frommiRcomp.Rmdusingknitr::rmarkdown

Last update: 2015-10-09
Started: 2015-10-09

Citation

Development and contributors

Readme and manuals

Help Manual

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