state_fractions: State Fractions (by group)

In jlaffy/scalop: Single Cell Analysis Operations

State Fractions (by group)

Description

Get the fraction of cells in each state, by group if <groups> provided. Here, the rows in <scores> are interpreted as cells and the columns as their state scores, but more generally the function assigns each row to its maximum column (state) and subsequently counts the number of observations per state where if <groups> provided then the observations are first subsetted by group.

Usage

state_fractions(scores, groups = NULL, min = NULL, diff = NULL)

Arguments

scores	a data.frame object of cell signature scores (cells X signatures/states)
groups	should fractions be computed separately for groups, e.g. samples? a list of observations by group. Default: NULL
min	minimum value required for a row to be assigned to a column. Default: NULL
diff	minimum difference in value to the 'next-best' row that is required for a row to be assigned to a column. Default: NULL

Value

a numeric or data.frame object with states as (col)names and if data.frame, groups as rownames.

See Also

setNames

jlaffy/scalop documentation built on March 24, 2024, 9 a.m.