MedianBE {Canek} | R Documentation |
Correction vector estimation
Description
Batch effect estimation using the MNNs pairs.
Usage
MedianBE(refBatch, queBatch, pairs)
Arguments
refBatch |
Reference batch. |
queBatch |
Query batch. |
pairs |
A numerical matrix containing MNNs pairs cell indexes. First column corresponds to query batch cells. |
Details
The input batches must have the same number of genes. The model used on the estimation has the form of g_ref = g_que + be, where the batch effect is represented as a value added to the reference gene expression. The batch effect is estimated as the median of the gene expression difference among the reference and the query batch, e.g. Median(g_ref - g_que).
Value
A list containing the estimated correction vector and the estimation data. The length of the correction vector is equal to the number of genes.
[Package Canek version 0.2.5 Index]