Predicts the cluster labels for a reference data set to a query data set using lda.
Usage
predict_data(
obj = obj,
data_query = query,
ref_clusters = NULL,
FSC.A = "FSC.A",
FSC.H = "FSC.H",
pred_name = "clusters_predicted",
assay_ref = NULL,
assay_query = NULL,
chunk_size = 1e+06,
return_obj = TRUE
)Arguments
- obj
The Seurat object.
- data_query
A data frame or a Seurat object with the cells whose labels should be predicted.
- ref_clusters
The meta.data column with the reference cluster labels.
- FSC.A
The name of the column containing the FSC.A scatter parameter.
- FSC.H
The name of the column containing the FSC.H scatter parameter.
- pred_name
The name of the meta.data column for predicted cluster labels (character vector).
- assay_ref
The name of the Seurat assay which was used to calculate the reference cluster labels.
- assay_query
The name of the Seurat assay containing cells whose labels should be predicted. Only if the query is provided as a Seurat object.
- chunk_size
Chunk size for the prediction progress for verbose output to standard out.
- return_obj
Boolean. Add the predicted cluster labels to the Seurat object? Only if the query is provided as a data frame.