Integrations cumulative count in time by sample — cumulative_count

This function was deprecated in favour of a single function, please use cumulative_is instead.

Usage

cumulative_count_union(
  x,
  association_file = NULL,
  timepoint_column = "TimePoint",
  key = c("SubjectID", "CellMarker", "Tissue", "TimePoint"),
  include_tp_zero = FALSE,
  zero = "0000",
  aggregate = FALSE,
  ...
)

Arguments

x: A simple integration matrix or an aggregated matrix (see details)
association_file: NULL or the association file for x if aggregate is set to TRUE
timepoint_column: What is the name of the time point column?
key: The aggregation key - must always contain the timepoint_column
include_tp_zero: Include timepoint 0?
zero: How is 0 coded in the data frame?
aggregate: Should x be aggregated?
...: Additional parameters to pass to aggregate_values_by_key

Value

A data frame

Examples

if (FALSE) {
data("integration_matrices", package = "ISAnalytics")
data("association_file", package = "ISAnalytics")
aggreg <- aggregate_values_by_key(
    x = integration_matrices,
    association_file = association_file,
    value_cols = c("seqCount", "fragmentEstimate")
)
cumulative_count <- cumulative_count_union(aggreg)
cumulative_count
}