plot_pareto_markers: Plot best markers in the (fold change of detection, AUROC)...

Description Usage Arguments

View source: R/pareto_front.R

Description

This visualization displays markers meeting minimal threshold conditions in the (fold change of detection, AUROC) space. The best markers (Pareto front) are highlighted and labeled.

Usage

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plot_pareto_markers(
  meta_markers,
  cell_type_name,
  min_recurrence = 1,
  min_auroc = 0.5,
  min_fc = 0,
  fc_threshold = 3,
  auroc_threshold = 0.8
)

Arguments

meta_markers

Meta-marker table obtained with make_meta_marker.

cell_type_name

Name of cell type to be plotted (must be contained in meta-markers).

min_recurrence

Recurrence threshold for a marker to be plotted (# of datasets where marker was DE)

min_auroc

AUROC threshold for a marker to be plotted.

min_fc

Fold change of detection threshold for a marker to be plotted.

fc_threshold

Threshold at which to draw a dashed line on the AUROC axis (set to NULL to skip).

auroc_threshold

Threshold at which to draw a dashed line on the fold change axis (set to NULL to skip).


gillislab/MetaMarkers documentation built on April 24, 2021, 9:25 p.m.