compute_pem_scores: Compute Preferential Expression Measure scores from...
In saezlab/liana: LIANA: a LIgand-receptor ANalysis frAmework
View source: R/crosstalk_funs.R
compute_pem_scores R Documentation
Compute Preferential Expression Measure scores from SingleCellExperiment object
Description
Compute Preferential Expression Measure scores from SingleCellExperiment object
Usage
compute_pem_scores(sce, assay.type = "logcounts")
Arguments
sce
A SingleCellExperiment object containing log-normalized expression
values and cell type annotations as colLabels
assay.type
The name of the data slot containing the log-normalized expression
values in the SingleCellExperiment object
Details
Uses the information contained in a SingleCellExperiment object to
stratify the expression matrix by cell type, and then computes the PEM scores
from the exponential of the normalized expression values.
IMPORTANT:
This function expects an object containing log-transformed values (not raw counts).
Value
A matrix containing the computed PEM values
saezlab/liana documentation built on Nov. 8, 2023, 11:53 a.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.
View source: R/crosstalk_funs.R
| compute_pem_scores | R Documentation |
Compute Preferential Expression Measure scores from SingleCellExperiment object
Description
Compute Preferential Expression Measure scores from SingleCellExperiment object
Usage
compute_pem_scores(sce, assay.type = "logcounts")
Arguments
sce |
A SingleCellExperiment object containing log-normalized expression values and cell type annotations as colLabels |
assay.type |
The name of the data slot containing the log-normalized expression values in the SingleCellExperiment object |
Details
Uses the information contained in a SingleCellExperiment object to stratify the expression matrix by cell type, and then computes the PEM scores from the exponential of the normalized expression values.
IMPORTANT: This function expects an object containing log-transformed values (not raw counts).
Value
A matrix containing the computed PEM values
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.