get.verhaak.subtypes: Get ovarian cancer subtypes as defined by Verhaak et al.,...
In bhklab/consensusOV: Gene expression-based subtype classification for high-grade serous ovarian cancer
View source: R/get.verhaak.subtypes.R
get.verhaak.subtypes R Documentation
Get ovarian cancer subtypes as defined by Verhaak et al., 2013
Description
Get ovarian cancer subtypes as defined by Verhaak et al., 2013
Usage
get.verhaak.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 Verhaak.subtypes containing a factor
of subtype names; and second value gsva containing the GSVA subtype
scores
References
Verhaak et al. Prognostically relevant gene signatures of
high-grade serous ovarian carcinoma.
The Journal of Clinical Investigation (2013)
Examples
library(Biobase)
data(GSE14764.eset)
expression.matrix <- exprs(GSE14764.eset)
entrez.ids <- as.character(fData(GSE14764.eset)$EntrezGene.ID)
get.konecny.subtypes(expression.matrix, entrez.ids)
bhklab/consensusOV documentation built on Feb. 13, 2024, 4:50 a.m.
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View source: R/get.verhaak.subtypes.R
| get.verhaak.subtypes | R Documentation |
Get ovarian cancer subtypes as defined by Verhaak et al., 2013
Description
Get ovarian cancer subtypes as defined by Verhaak et al., 2013
Usage
get.verhaak.subtypes(expression.matrix, entrez.ids)
Arguments
expression.matrix |
A matrix of gene expression values with rows as genes, columns as samples. |
entrez.ids |
A vector of Entrez Gene IDs, corresponding to the rows of
|
Value
A list with first value Verhaak.subtypes containing a factor
of subtype names; and second value gsva containing the GSVA subtype
scores
References
Verhaak et al. Prognostically relevant gene signatures of high-grade serous ovarian carcinoma. The Journal of Clinical Investigation (2013)
Examples
library(Biobase)
data(GSE14764.eset)
expression.matrix <- exprs(GSE14764.eset)
entrez.ids <- as.character(fData(GSE14764.eset)$EntrezGene.ID)
get.konecny.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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