Select genes with the highest mean expression across samples.
Usage
genes_top_mean(phyex_set, top_p = 0.99, top_k = NULL)
Arguments
- phyex_set
A PhyloExpressionSet object
- top_p
Quantile threshold for gene selection (default: 0.99). Ignored if top_k is specified.
- top_k
Absolute number of top genes to select (default: NULL). Takes precedence over top_p.
Value
Character vector of gene IDs with mean expression >= top_p quantile or top top_k genes
Details
This function identifies genes with the highest mean expression levels,
which are often the most reliably detected and functionally important.
Examples
# Select top 1% most expressed genes by mean
high_expr_genes <- genes_top_mean(example_phyex_set, top_p = 0.99)
# Select top 1000 most expressed genes
top_1000_genes <- genes_top_mean(example_phyex_set, top_k = 1000)
