MAVTgsa-package: OLS and Multivariate Analysis of Variance test for gene set...
In MAVTgsa: Three methods to identify differentially expressed gene sets, ordinary least square test, Multivariate Analysis Of Variance test with n contrasts and Random forest.
Description
Details
Author(s)
References
Description
A gene set analysis function for one-sided test (OLS) and two-sided test (multivariate analysis of variance).
Three multiple comparison procedures, Dunnett, Tukey, and sequential pairwise comparison, are implemented.
MAVTgsa computes the p-values and FDR (false discovery rate) q-values for all gene sets.
The p-values for individual genes in a significant gene set are also listed.
MAVTgsa generates a GST-plot of the empirical distribution function of the ranked test statistics of a given gene set.
Details
Package: MAVTgsa
Type: Package
Version: 1.0
Date: 2012-10-04
License: What license is it under?
LazyLoad: yes
Author(s)
Chih-Yi Chien, Chen-An Tsai, Ching-Wei Chang, and James J. Chen
Maintainer: Chih-Yi Chien <chihyi.chien@fda.hhs.gov>
References
Chen,J.J. et al. (2007) Significance analysis of group of genes in expression profiling studies, Bioinformatics, 23, 2104.
Tsai,C.A. et al. (2009) Multivariate analysis of variance test for gene set analysis. Bioinformatics, 25, 897.
MAVTgsa documentation built on May 2, 2019, 6:37 a.m.
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Description Details Author(s) References
Description
A gene set analysis function for one-sided test (OLS) and two-sided test (multivariate analysis of variance). Three multiple comparison procedures, Dunnett, Tukey, and sequential pairwise comparison, are implemented. MAVTgsa computes the p-values and FDR (false discovery rate) q-values for all gene sets. The p-values for individual genes in a significant gene set are also listed. MAVTgsa generates a GST-plot of the empirical distribution function of the ranked test statistics of a given gene set.
Details
| Package: | MAVTgsa |
| Type: | Package |
| Version: | 1.0 |
| Date: | 2012-10-04 |
| License: | What license is it under? |
| LazyLoad: | yes |
Author(s)
Chih-Yi Chien, Chen-An Tsai, Ching-Wei Chang, and James J. Chen
Maintainer: Chih-Yi Chien <chihyi.chien@fda.hhs.gov>
References
Chen,J.J. et al. (2007) Significance analysis of group of genes in expression profiling studies, Bioinformatics, 23, 2104.
Tsai,C.A. et al. (2009) Multivariate analysis of variance test for gene set analysis. Bioinformatics, 25, 897.
R Package Documentation
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