Description Usage Arguments Value
Test for markers of a population using a precision-recall curve
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object |
An URD object |
clust.1 |
(Character) |
clust.2 |
(Character) |
cells.1 |
(Character vector) |
cells.2 |
(Character vector) |
clustering |
(Character) Name of a clustering (i.e. a column in |
effect.size |
(Numeric) Minimum log fold-change for two genes to be considered differentially expressed |
frac.must.express |
(Numeric) Gene must be expressed in at least this fraction of cells in one of the two clusters to be considered. |
exp.thresh |
(Numeric) Minimum expression value to consider 'expressed.' |
frac.min.diff |
(Numeric) Fraction of cells expressing the gene must be at least this different between two populations to be considered.
@param auc.factor (Numeric) The precision-recall AUC is determined for a random classifier is determined based on the size of populations. To be considered differential, genes must have an AUC that is |
max.auc.threshold |
(Numeric) This acts as an upper bound for how high the AUC must be for a gene to be considered differential (i.e. you can choose that no matter the expectation for a random classifier, any gene with an AUC > 0.9 is considered differential). |
genes.use |
(Character vector) Genes to compare, default is NULL (all genes) |
(data.frame)
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