gsScore: Calculate score across genes and samples
In WubingZhang/rMAUPS: Model-Based Analysis of Ubiquitin-Proteome System Based Protein Degradation.
gsScore R Documentation
Calculate score across genes and samples
Description
This wrapper function combines filtering out genes with low reads in a number of
samples (recommended for limma:voom) with normalization
Usage
gsScore(dat, gset, fun = "PC")
Arguments
dat
normalized count matrix; rows are all genes in the signature that shall be summarized into one score; columns are samples
gset
Gene sets.
fun
("PC", default), Pearson, ssGSEA or mean (other value). fisher, stouffer
Value
numeric vector or matrix.
Author(s)
Wubing Zhang
WubingZhang/rMAUPS documentation built on March 21, 2022, 8:48 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.
| gsScore | R Documentation |
Calculate score across genes and samples
Description
This wrapper function combines filtering out genes with low reads in a number of samples (recommended for limma:voom) with normalization
Usage
gsScore(dat, gset, fun = "PC")
Arguments
dat |
normalized count matrix; rows are all genes in the signature that shall be summarized into one score; columns are samples |
gset |
Gene sets. |
fun |
("PC", default), Pearson, ssGSEA or mean (other value). fisher, stouffer |
Value
numeric vector or matrix.
Author(s)
Wubing Zhang
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.