Early Conservation Test

Test for early conservation patterns in transcriptomic data by comparing early developmental stages to mid and late stages.

Usage

stat_early_conservation_test(phyex_set, modules, ...)

Arguments

phyex_set

A PhyloExpressionSet object

modules

A named list with elements 'early', 'mid', and 'late' containing stage indices for each developmental module

...

Additional arguments passed to stat_generic_conservation_test

Value

A ConservationTestResult object with early conservation test results

Details

The early conservation test evaluates whether early developmental stages show lower transcriptomic index values (indicating older genes) compared to later stages. The test computes a score based on the minimum difference between mid vs. early and late vs. early TXI values.

See also

stat_generic_conservation_test, stat_late_conservation_test

Examples

# Define developmental modules
p <- example_phyex_set_old |> 
     select_genes(example_phyex_set_old@gene_ids[1:100])
modules <- list(early = 1:2, mid = 3:5, late = 6:7)
result <- stat_early_conservation_test(p, modules=modules)
#> 
Computing: [========================================] 100% (done)