brca: BRCA gene expression dataset as SummarizedExperiment
In martahidalgo/hipathia: HiPathia: High-throughput Pathway Analysis
brca R Documentation
BRCA gene expression dataset as SummarizedExperiment
Description
A dataset containing a matrix with the Gene expression of 40 samples from the
BRCA-US project from The Cancer Genome Atlas (TCGA), and their experimental
design, containing 20 "Tumor" samples 20 "Normal" samples.
Usage
data(brca)
Format
SummarizedExperiment. The assay is a matrix with 40 columns and
18638 rows. Row names are Entrez IDs and column names are the TCGA
identifyers of the samples. The colData() is a data.frame with 1 column and
40 rows, including the experimental design of the 40 samples from the BRCA-US
project from TCGA. Field group is the type of sample, either "Tumor"
or "Normal".
Details
The gene expression matrix includes 40 samples. The data has been
log-transformed and normalized with TMM.
Value
SummarizedExperiment including a matrix with 40 columns and 18638
rows. Row names are Entrez IDs and column names are the TCGA identifyers of
the samples.
Source
martahidalgo/hipathia documentation built on Jan. 12, 2023, 1:44 p.m.
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.
| brca | R Documentation |
BRCA gene expression dataset as SummarizedExperiment
Description
A dataset containing a matrix with the Gene expression of 40 samples from the BRCA-US project from The Cancer Genome Atlas (TCGA), and their experimental design, containing 20 "Tumor" samples 20 "Normal" samples.
Usage
data(brca)
Format
SummarizedExperiment. The assay is a matrix with 40 columns and
18638 rows. Row names are Entrez IDs and column names are the TCGA
identifyers of the samples. The colData() is a data.frame with 1 column and
40 rows, including the experimental design of the 40 samples from the BRCA-US
project from TCGA. Field group is the type of sample, either "Tumor"
or "Normal".
Details
The gene expression matrix includes 40 samples. The data has been log-transformed and normalized with TMM.
Value
SummarizedExperiment including a matrix with 40 columns and 18638 rows. Row names are Entrez IDs and column names are the TCGA identifyers of the samples.
Source
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.