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ORdensity (version 1.0)

Identification of Differentially Expressed Genes

Description

Automated discovery of differentially expressed genes. The method (called ORdensity) is composed of two phases: discovering potential differentially expressed genes and recognizing differentially expressed genes. It makes use of a permutation resampling procedure to build outlying and density indexes. References: a) Irigoien, I. and Arenas, C. (2018). "Identification of differentially expressed genes by means of outlier detection". . b) Martnez-Otzeta, J. M., Irigoien, I., Sierra, B., and Arenas, C. (2020). "ORdensity: user-friendly R package to identify differentially expressed genes". .

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Version

Install

install.packages('ORdensity')

Monthly Downloads

12

Version

1.0

License

GPL (>= 2)

Maintainer

Josc3<a9> Mart<c3><ad>nez Otzeta

Last Published

May 13th, 2020

Functions in ORdensity (1.0)

ORdensity-package

Automated discovery of differentially expressed genes
findDEgenes

Clustering of the potential differentially expressed (DE) genes
plot.ORdensity

Plot function implemented by ORdensity class
preclusteredData

Preprocessed description of all the identified potential DE genes
simexpr

Simulated data with differentially expressed (DE) genes
ORdensity-class

S4 class for representing potential differentially expressed genes
summary.ORdensity

Summary function implemented by ORdensity class