Annotate Clusters with Summary Terms and Pooled P-Values

Adds cluster annotations based on a provided term annotation vector and pools p-values for each cluster using the specified method.

Usage

annotateClusters(
  input,
  term_annotation_vector,
  method = "fisher",
  weights = NULL,
  min_pval = 1e-10
)

Arguments

input

A data frame containing condition, Cluster, Term, and adj_pval columns.

term_annotation_vector

A named vector where names are cluster IDs and values are annotations.

method

The method to use for pooling p-values. Options are "fisher", "stouffer", "weighted_z", and "cauchy".

weights

A numeric vector of weights for the Weighted Z-test. Defaults to NULL.

min_pval

The minimum threshold for pooled p-values. Defaults to 1e-9.

Value

A data frame with cluster annotations and pooled p-values.