test_stratification_cellularity

test_stratification_cellularity

test_stratification_cellularity

# S4 method for class 'SummarizedExperiment'
test_stratification_cellularity(
  .data,
  .formula,
  .abundance = NULL,
  method = c("cibersort", "llsr", "epic", "mcp_counter", "quantiseq", "xcell"),
  reference = X_cibersort,
  ...
)

# S4 method for class 'RangedSummarizedExperiment'
test_stratification_cellularity(
  .data,
  .formula,
  .abundance = NULL,
  method = c("cibersort", "llsr", "epic", "mcp_counter", "quantiseq", "xcell"),
  reference = X_cibersort,
  ...
)

Arguments

.data

A `SummarizedExperiment` object

.formula

A formula representing the desired linear model

.abundance

The name of the transcript/gene abundance column

method

A character string naming the deconvolution method

reference

Reference matrix or method-specific handle

...

Additional arguments passed through to the underlying deconvolution function

Value

A consistent object (to the input) with additional columns for the statistics from the hypothesis test (e.g., log fold change, p-value and false discovery rate).

A consistent object (to the input) with additional columns for the statistics from the hypothesis test (e.g., log fold change, p-value and false discovery rate).