Skip to contents

Rust version of singscore for many gene sets

rs_singscore_multi.Rd

[Experimental] Rust-based implementation of singscore over many gene sets with optional paired down sets.

Usage

rs_singscore_multi(
  ranks,
  up_list,
  down_list,
  center_score,
  known_direction,
  stable
)

Arguments

ranks

Numerical matrix. The ranked expression matrix.

up_list

List. Up gene sets as 0-based indices. See rs_prepare_gsva_gs().

down_list

List or NULL. Paired down gene sets as 0-based indices, same length and ordering as up_list.

center_score

Boolean. Centre scores around 0. Disabled internally when known_direction = FALSE.

known_direction

Boolean. Whether the up-set direction is known.

stable

Boolean. If TRUE, use stable-gene score bounds.

Value

A named list with

  • scores - Numerical matrix with the scores

  • dispersions - Numerical matrix with the dispersions

Both matrices are of shape gene sets x samples.