Seabird epigenetic age assay - variable selection

This R script uses the data frame of DNAm values from the pipeline script as an input to the glmnet package to select for markers based on lambda 1se or min. First, samples are adjusted for any between run difference and the cv.glmnet function is used to penalise the large set of variables against k...

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Bibliographic Details
Main Authors: De Paoli-Iseppi, Ricardo, Deagle, Bruce, Polanowski, Andrea, McMahon, Clive, Dickinson, Joanne, Hindell, Mark, Jarman, Simon
Format: Dataset
Language:unknown
Published: Dryad Digital Repository 2018
Subjects:
Age
Birds
DNA methylation
Epigenetics
DREAM
Flinders Island
Fisher Island
Tasmania
Ardenna tenuirostris
Flinders
Lambda
Online Access:https://dx.doi.org/10.5061/dryad.n4h3672/4
https://datadryad.org/resource/doi:10.5061/dryad.n4h3672/4
Description
Summary:This R script uses the data frame of DNAm values from the pipeline script as an input to the glmnet package to select for markers based on lambda 1se or min. First, samples are adjusted for any between run difference and the cv.glmnet function is used to penalise the large set of variables against known age. Any selected variables are then visualised (and filtered if needed) using simple linear regression. The final selection of markers are then used to train and test a multiple linear regression.

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