View source: R/differential_expression.R
findScranMarkers_one_vs_all | R Documentation |
Identify marker feats for all clusters in a one vs all manner based on scran's implementation of findMarkers.
findScranMarkers_one_vs_all(
gobject,
spat_unit = NULL,
feat_type = NULL,
expression_values = c("normalized", "scaled", "custom"),
cluster_column,
subset_clusters = NULL,
pval = 0.01,
logFC = 0.5,
min_feats = 10,
min_genes = NULL,
verbose = TRUE,
...
)
gobject |
giotto object |
spat_unit |
spatial unit |
feat_type |
feature type |
expression_values |
feat expression values to use |
cluster_column |
clusters to use |
subset_clusters |
subset of clusters to use |
pval |
filter on minimal p-value |
logFC |
filter on logFC |
min_feats |
minimum feats to keep per cluster, overrides pval and logFC |
min_genes |
deprecated, use min_feats |
verbose |
be verbose |
... |
additional parameters for the findMarkers function in scran |
data.table with marker feats
findScranMarkers
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.