Description Usage Arguments Details Value Examples
entropy
1 2 3 4 5 6 7 8 9 
sce 

group 
Character. Name of group/batch variable.
Needs to be one of 
k 
Numeric. Number of knearest neighbours (knn) to use. 
dim_red 
Character. Name of embeddings to use as subspace for distance distributions. Default is "PCA". 
assay_name 
Character. Name of the assay to use for PCA.
Only relevant if no existing 'dim_red' is provided.
Must be one of 
n_dim 
Numeric. Number of dimensions to include to define the subspace. 
res_name 
Character. Appendix of the result score's name (e.g. method used to combine batches). 
The entropy function calculates the Shannon entropy of the group variable within each cell's knearest neighbourhood. For balanced batches a Shannon entropy close to 1 indicates high randomness and mixing. For unbalanced batches entropy should be interpreted with caution, but could work as a relative measure in a comparative setting.
A SingleCellExperiment
with the entropy score within colData.
1 2 3 4 5 
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.