sce_int_clustering_df_fn | R Documentation |
For Harmony integration, the "harmony"
reduced dims are used as an input to scran::buildSNNGraph()
;
otherwise PCA is used.
sce_int_clustering_df_fn(
sce_int_pca_df,
snn_k = 10,
snn_type = "rank",
snn_clustering_method = c("walktrap", "louvain"),
BPPARAM = BiocParallel::SerialParam()
)
sce_int_pca_df |
(input target) A tibble. |
snn_k, snn_type, snn_clustering_method |
See |
BPPARAM |
A BiocParallel::BiocParallelParam object. |
A modified sce_int_pca_df
with appended SingleCellExperiment
object with computed clustering.
Output target: sce_int_clustering_df
The following items of metadata()
of each integrated SingleCellExperiment
object are added or modified:
int_cluster_snn_k
, int_cluster_snn_type
, int_cluster_snn_method
:
taken from parameters of the integration method.
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