GSAR: Gene Set Analysis in R

Gene set analysis using specific alternative hypotheses. Tests for differential expression, scale and net correlation structure.

Author
Yasir Rahmatallah <yrahmatallah@uams.edu>, Galina Glazko <gvglazko@uams.edu>
Date of publication
None
Maintainer
Yasir Rahmatallah <yrahmatallah@uams.edu>, Galina Glazko <gvglazko@uams.edu>
License
GPL (>=2)
Version
1.8.0

View on Bioconductor

Man pages

AggrFtest
Aggregated F-Test of Variance Using Fisher's Probability...
findMST2
Union of the First and Second Minimum Spanning Trees
findMST2.PPI
Union of the First and Second Minimum Spanning Trees for PPI...
GSAR-package
Gene Set Analysis in R
GSNCAtest
Gene Sets Net Correlations Analysis
HDP.ranking
High Directed Preorder Ranking of MST
KStest
Multivariate Kolmogorov-Smirnov Test of Means
MDtest
Multivariate Mean Deviation Test of Means
p53DataSet
p53 Dataset of the NCI-60 Cell Lines
plotMST2.pathway
Plot MST2 for a pathway in two conditions
radial.ranking
Radial Ranking of MST
RKStest
Multivariate Radial Kolmogorov-Smirnov Test of Variance
RMDtest
Multivariate Radial Mean Deviation Test of Variance
TestGeneSets
Test a List of Gene Sets Using a Specific Statistical Method
WWtest
Multivariate Generalization of the Wald-Wolfowitz Runs Test

Files in this package

GSAR/DESCRIPTION
GSAR/NAMESPACE
GSAR/R
GSAR/R/AggrFtest.R
GSAR/R/GSNCAtest.R
GSAR/R/HDP.ranking.R
GSAR/R/KStest.R
GSAR/R/MDtest.R
GSAR/R/RKStest.R
GSAR/R/RMDtest.R
GSAR/R/TestGeneSets.R
GSAR/R/WWtest.R
GSAR/R/findMST2.PPI.R
GSAR/R/findMST2.R
GSAR/R/plotMST2.pathway.R
GSAR/R/radial.ranking.R
GSAR/build
GSAR/build/vignette.rds
GSAR/data
GSAR/data/datalist
GSAR/data/p53DataSet.rda
GSAR/inst
GSAR/inst/CITATION
GSAR/inst/NEWS.Rd
GSAR/inst/doc
GSAR/inst/doc/GSAR.R
GSAR/inst/doc/GSAR.Rnw
GSAR/inst/doc/GSAR.pdf
GSAR/man
GSAR/man/AggrFtest.Rd
GSAR/man/GSAR-package.Rd
GSAR/man/GSNCAtest.Rd
GSAR/man/HDP.ranking.Rd
GSAR/man/KStest.Rd
GSAR/man/MDtest.Rd
GSAR/man/RKStest.Rd
GSAR/man/RMDtest.Rd
GSAR/man/TestGeneSets.Rd
GSAR/man/WWtest.Rd
GSAR/man/findMST2.PPI.Rd
GSAR/man/findMST2.Rd
GSAR/man/p53DataSet.Rd
GSAR/man/plotMST2.pathway.Rd
GSAR/man/radial.ranking.Rd
GSAR/vignettes
GSAR/vignettes/Bioconductor.sty
GSAR/vignettes/GSAR.Rnw
GSAR/vignettes/GSAR.bib
GSAR/vignettes/outline.pdf
GSAR/vignettes/unsrturl.bst