Fit biofluid-stable anchor rCLR — fit_biofluid_anchor

Selects denominator anchors with the lowest ratio of between-biofluid variance to total variance in the training pool.

Usage

fit_biofluid_anchor_rclr(
  train_expr,
  train_meta,
  panel,
  biofluid_col = "biofluid",
  pseudocount = NULL,
  anchor_n = 12L,
  min_anchor_n = 3L,
  min_biofluid_classes = 2L,
  exclude_features = .bfa_default_blood_cell_mirnas()
)

Arguments

train_expr: Numeric matrix, samples x features.
train_meta: Data frame aligned to `train_expr`.
panel: Character vector of panel features.
biofluid_col: Column in `train_meta` with canonical or raw biofluid.
pseudocount: Optional additive pseudocount before log transform.
anchor_n: Number of anchor features to select.
min_anchor_n: Minimum anchors required for an evaluable fit.
min_biofluid_classes: Minimum biofluid classes in which an anchor must be detected.
exclude_features: Features excluded from rCLR denominator selection.