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Retrieve integration scores from a Seurat object

Source: R/scores.R
get-score.Rd

Scores are stored as tibble objects in Misc. Slot for raw scores is named 'si_scores' while scaled scores are found under 'si_scaled.scores'.

GetMiscIntegrations: Get (or search for) integration names in the score tibble

GetMiscScores: Get (or search for) score names in the score tibble

IntegrationScores: Get the tibble with scaled or unscaled scores

Usage

GetMiscIntegrations(object, search = NULL)

GetMiscScores(object, search = NULL)

IntegrationScores(object, scaled = FALSE)

Arguments

object

a Seurat object

a character vector of names to search for through case-insensitive exact match. NULL disables the search (default)

scaled

whether to query the unscaled (default) or scaled scores (if scaling has been performed)

Value

GetMiscIntegrations: a character vector of integration names, or NULL when the object doesn't have 'si_scores' in Misc or when search did not return any result.

GetMiscScores: a character vector of score names, or NULL when the object doesn't have 'si_scores' in Misc or when search did not return any result.

IntegrationScores: either NULL if the requested object does not exist, otherwise a tibble. The first column contains the name of the integrations, and each following column corresponds to a score.