Bacon

This option writes the input file for the age modeling program Bacon (Blaauw & Christen, 2011). Bacon is an R package, which can be run in the R GUI or in RStudio. In either case, the working directory must be changed to the directory containing the Bacon input file written by Tilia, and the Bacon library must be opened. In the example below, the Bacon input file was saved to GOATLAKE.csv. See Modern Age Models for instructions for accessing the Export Chron Controls dialog box.

Click the radiobutton for Bacon (*.csv) to write the Bacon input file. Two .csv files are written: one that is the Bacon input file and another that has a list of all sample depths in the data worksheet.

 

In the Save As dialog box, the Bacon input file must saved in the Bacon Cores folder in a subfolder with the same name as the file name. In this example, the file GOATLAKE.csv was saved in the clam\Cores\GOATLAKE folder. The GOATLAKE subfolder was created as a New Folder in the Save As dialog box.

This R command line will run the Bacon model:

> Bacon("GOATLAKE",thick=5,acc.mean=30,d.max=298,depths.file=TRUE)

 

See the Bacon manual linked here for explanation of parameters. Bacon will suggest a default acc.mean parameter; however, a good value can generally be determined by dividing the cal age span of the age controls by their depth span. Parameter d.max is entered if proxy depths extend beyond the maximum age-control depth. Parameter depths.file=TRUE tells Bacon to determine an age estimate for all proxy depths.

 

Below is a graph for this age model. Note how Bacon deals with outlier dates and inverted dates with overlapping probability distribution functions.