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List available transcriptomic clock models

Source: R/clocks.R
list_clocks.Rd

Returns the registry of published clock models available on Zenodo, with optional filtering. Pass a returned (filtered) data frame to download_clocks to download the corresponding files.

Usage

list_clocks(
  type = NULL,
  outcome = NULL,
  species = NULL,
  tissue = NULL,
  scaling = NULL
)

Arguments

type

Character. Filter by model type: "EN" (Elastic Net) or "BR" (Bayesian Ridge). Default NULL (no filter).

outcome

Character. Filter by prediction outcome: "Chronological", "Mortality", or "Normalized age". Default NULL.

species

Character. Filter by species group: "Mouse", "Rodents", or "Multispecies". Default NULL.

tissue

Character. Filter by tissue (e.g. "Multi-Tissue", "Liver"). Default NULL.

scaling

Character. Filter by normalisation: "Scaled" or "YuGene". Default NULL.

Value

A data frame with columns filename, type, outcome, species, tissue, scaling and lifespan_scaled (whether the output is rescaled to age units).

Examples

# All Elastic Net mortality clocks
list_clocks(type = "EN", outcome = "Mortality")
#>                                               filename type   outcome
#> 1        EN_Mortality_Mouse_Multitissue_scaleddiff.pkl   EN Mortality
#> 2        EN_Mortality_Mouse_Multitissue_yugenediff.pkl   EN Mortality
#> 3 EN_Mortality_Multispecies_Multitissue_scaleddiff.pkl   EN Mortality
#> 4 EN_Mortality_Multispecies_Multitissue_yugenediff.pkl   EN Mortality
#> 5            EN_Mortality_Rodents_Liver_scaleddiff.pkl   EN Mortality
#> 6            EN_Mortality_Rodents_Liver_yugenediff.pkl   EN Mortality
#> 7      EN_Mortality_Rodents_Multitissue_scaleddiff.pkl   EN Mortality
#> 8      EN_Mortality_Rodents_Multitissue_yugenediff.pkl   EN Mortality
#>        species       tissue scaling lifespan_scaled
#> 1        Mouse Multi-Tissue  Scaled           FALSE
#> 2        Mouse Multi-Tissue  YuGene           FALSE
#> 3 Multispecies Multi-Tissue  Scaled           FALSE
#> 4 Multispecies Multi-Tissue  YuGene           FALSE
#> 5      Rodents        Liver  Scaled           FALSE
#> 6      Rodents        Liver  YuGene           FALSE
#> 7      Rodents Multi-Tissue  Scaled           FALSE
#> 8      Rodents Multi-Tissue  YuGene           FALSE