get.bentink.subtypes: Get ovarian cancer subtypes as defined by Bentink et al.,...
In consensusOV: Gene expression-based subtype classification for high-grade serous ovarian cancer
Description
Usage
Arguments
Value
References
Examples
View source: R/get.bentink.subtypes.R
Description
Get ovarian cancer subtypes as defined by Bentink et al., 2012
Usage
1
get.bentink.subtypes(expression.matrix, entrez.ids)
Arguments
expression.matrix
A matrix of gene expression values with rows as
genes, columns as samples.
entrez.ids
A vector of Entrez Gene IDs, corresponding to the rows of
expression.matrix
Value
A list with first value Bentink.subtypes containing a factor
of subtype names; and second value angio containing the ouput of
genefu::ovcAngiogenic
References
Bentink et al. Angiogenic mRNA and microRNA gene expression
signature predicts
a novel subtype of serous ovarian cancer. PloS one (2012).
Examples
1
2
3
4
5
6
library(Biobase)
library(genefu)
data(GSE14764.eset)
expression.matrix <- exprs(GSE14764.eset)
entrez.ids <- as.character(fData(GSE14764.eset)$EntrezGene.ID)
get.bentink.subtypes(expression.matrix, entrez.ids)
consensusOV documentation built on Nov. 8, 2020, 7:06 p.m.
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Description Usage Arguments Value References Examples
View source: R/get.bentink.subtypes.R
Description
Get ovarian cancer subtypes as defined by Bentink et al., 2012
Usage
1 | get.bentink.subtypes(expression.matrix, entrez.ids)
|
Arguments
expression.matrix |
A matrix of gene expression values with rows as genes, columns as samples. |
entrez.ids |
A vector of Entrez Gene IDs, corresponding to the rows of
|
Value
A list with first value Bentink.subtypes containing a factor
of subtype names; and second value angio containing the ouput of
genefu::ovcAngiogenic
References
Bentink et al. Angiogenic mRNA and microRNA gene expression signature predicts a novel subtype of serous ovarian cancer. PloS one (2012).
Examples
1 2 3 4 5 6 | library(Biobase)
library(genefu)
data(GSE14764.eset)
expression.matrix <- exprs(GSE14764.eset)
entrez.ids <- as.character(fData(GSE14764.eset)$EntrezGene.ID)
get.bentink.subtypes(expression.matrix, entrez.ids)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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