messina: Single-gene classifiers and outlier-resistant detection of differential expression for two-group and survival problems.

Messina is a collection of algorithms for constructing optimally robust single-gene classifiers, and for identifying differential expression in the presence of outliers or unknown sample subgroups. The methods have application in identifying lead features to develop into clinical tests (both diagnostic and prognostic), and in identifying differential expression when a fraction of samples show unusual patterns of expression.

Author
Mark Pinese [aut], Mark Pinese [cre], Mark Pinese [cph]
Date of publication
None
Maintainer
Mark Pinese <m.pinese@garvan.org.au>
License
EPL (>= 1.0)
Version
1.10.0

View on Bioconductor

Man pages

messina
Find optimal single feature classifiers
messinaDE
Detect differential expression in the presence of outliers
MessinaFits-class
The MessinaFits class
messina-package
The Messina package for classification and outlier...
MessinaParameters-class
The MessinaParameters class
MessinaResult-class
The MessinaResult class
messinaSurv
Find optimal prognostic features using the Messina algorithm
messinaTopResults
Display a summary of the top results from a Messina analysis
plot-MessinaClassResult-missing-method
Plot the results of a Messina analysis on a classification /...
plot-MessinaSurvResult-missing-method
Plot the results of a Messina analysis on a survival problem.
show-methods
Generic show methods for Messina objects.
tcga_kirc_example
Example TCGA KIRC RNAseq expression and survival data

Files in this package

messina/DESCRIPTION
messina/NAMESPACE
messina/R
messina/R/AllClasses.R
messina/R/AllGenerics.R
messina/R/RcppExports.R
messina/R/messina-package.R
messina/R/messina.R
messina/R/messinaSurv.R
messina/R/messinaTopResults.R
messina/R/plot-methods.R
messina/R/show-methods.R
messina/R/tcga_kirc_example-data.R
messina/REFERENCES.bib
messina/build
messina/build/vignette.rds
messina/data
messina/data/tcga_kirc_example.rda
messina/inst
messina/inst/CITATION
messina/inst/NEWS
messina/inst/doc
messina/inst/doc/messina.R
messina/inst/doc/messina.Rnw
messina/inst/doc/messina.pdf
messina/man
messina/man/MessinaFits-class.Rd
messina/man/MessinaParameters-class.Rd
messina/man/MessinaResult-class.Rd
messina/man/messina-package.Rd
messina/man/messina.Rd
messina/man/messinaDE.Rd
messina/man/messinaSurv.Rd
messina/man/messinaTopResults.Rd
messina/man/plot-MessinaClassResult-missing-method.Rd
messina/man/plot-MessinaSurvResult-missing-method.Rd
messina/man/show-methods.Rd
messina/man/tcga_kirc_example.Rd
messina/src
messina/src/Classifier.cpp
messina/src/Classifier.h
messina/src/Data.cpp
messina/src/Data.h
messina/src/RInterrupt.h
messina/src/RcppExports.cpp
messina/src/crossval.cpp
messina/src/crossval.h
messina/src/errors.cpp
messina/src/errors.h
messina/src/init.cpp
messina/src/messinaExtern.cpp
messina/src/types.h
messina/vignettes
messina/vignettes/messina.Rnw