findGiniMarkers_one_vs_all#
Last Updated: Jan 14, 2025
Description#
Identify marker feats for all clusters in a one vs all manner based on gini detection and expression scores.
Usage#
findGiniMarkers_one_vs_all(
gobject,
feat_type = NULL,
spat_unit = NULL,
expression_values = c("normalized", "scaled", "custom"),
cluster_column,
subset_clusters = NULL,
min_expr_gini_score = 0.5,
min_det_gini_score = 0.5,
detection_threshold = 0,
rank_score = 1,
min_feats = 4,
min_genes = NULL,
verbose = TRUE
)
Arguments#
|
giotto object |
|
feature type |
|
spatial unit |
|
feat expression values to use |
|
clusters to use |
|
selection of clusters to compare |
|
filter on minimum gini coefficient on expression |
|
filter on minimum gini coefficient on detection |
|
detection threshold for feat expression |
|
rank scores for both detection and expression to include |
|
minimum number of top feats to return |
|
deprecated, use min_feats |
|
be verbose |
Value#
data.table with marker feats
See Also#
findGiniMarkers