Create a MultiSampNiche object for cross-sample comparison

Creates and stores a MultiSampNiche object within an STID object, combining niche analysis results from multiple samples for comparative analysis.

Usage

CreateMultiSampNiche(
  STID_obj = NULL,
  multi_id = NULL,
  loop_id = "LoopAllSamp",
  compare_mode = NULL,
  niche_key = NULL,
  description = NULL
)

# S3 method for class 'STID'
CreateMultiSampNiche(
  STID_obj = NULL,
  multi_id = NULL,
  loop_id = "LoopAllSamp",
  compare_mode = NULL,
  niche_key = NULL,
  description = NULL
)

CreateMSNiche(...)

Arguments

STID_obj: An STID object containing SingleSampNiche objects
multi_id: Character, unique identifier for the multi-sample analysis
loop_id: Character, sample grouping identifier (default: "LoopAllSamp")
compare_mode: Character, comparison mode - "Comparative" or "Temporal"
niche_key: Character, niche key to combine across samples
description: Character, description of the multi-sample analysis
...: Additional arguments passed to methods

Value

Modified STID object with added MultiSampNiche information

Examples

if (FALSE) { # \dontrun{
# Create MultiSampNiche object for comparative analysis
STID_obj <- CreateMultiSampNiche(
  STID_obj = ist_obj,
  multi_id = "comparison_infected_vs_control",
  loop_id = c("infected1", "infected2", "control1", "control2"),
  compare_mode = "Comparative",
  niche_key = "niche_virulence"
)
} # }