v0.2.0 (CRAN)

BayLum 0.2.0 (2020-12-06)

Note: This package version needs at least R >= 3.5.0.

Bugfixes & changes

• AgeS_Computation()
  • Now stops if a mismatch was encountered between the number of
    samples and the matrix provided via THETA to prevent a ‘JAGS’
    runtime error
  • The function experimentally gained a new argument jags_method
    to support full automated processing in parallel using the R
    package 'runjags'; including a ... argument for a more
    detailed control. By default the calculation is done simply via
    'rjags' as usual
• Age_OSLC14()
  • Add additional output to enhance output table by additional
    information (#11)
  • The CSV-file option now returns the age and the HPD intervals
  • The bugs model for the gaussian distribution did not work due
    to a wrongly set index (#13); fixed.
  • If a small number of samples was used and the first was a C-14
    sample JAGS crashed; now it throws are more comprehensible error
    message (#14).
• Generate_DataFile_MG()
  • now works only on preselected records; the limitation of OSL
    only was removed.
• plot_Ages()
  • The sorting of the samples in the graph did not work as
    expected; along with this a new argument sample_order was
    added.
  • The function accepts a data.frame as alternative input, if the
    data.frame is similar the data frames created by the
    computation functions (e.g., AgeS_Computation()). This option
    enables the manual creation of age plots from self-compiled
    data.
• plot_MCMC()
  • Accidentally the function could not display the chains from more
    than 9 samples; fixed (thanks to Maryam Heydari)
  • Now the function understand the output of AgeS_Computation()
    for an automated treatment
  • Wrong variable names now lead to a warning instead of a
    stop. This is less aggressive and it makes the function easier
    to use by users who only use the plot functionality of
    'BayLum'
• plot_Scatterplots()
  • Line breaks and leading and trailing white space is now removed
    from the character (vector) provided via sample_names
  • If the number of selected samples via sample_selection was
    shorter than the number of names provided by sample_names the
    function returned an subscript out of bounds error; fixed
    (reported by Maryam Heydari)

Internals

• All models now come with an example showing how they can be
  inspected (before the examples not working)
• Fix a couple of documentation glitches (e.g., part of the
  documentation was missing)
• Smooth the creation of BayLum.list objects using a central
  internal function
• Add new C-14 calibration data and unify the names of those datasets.
  Allowed inputs are
  "IntCal13","IntCal20","Marine13","Marine20", "SHCal13",
  "SHCal20" or an own dataset which must be stored in a CSV-file.

New functions

• create_ThetaMatrix() this function is a helper to create the theta
  matrix that can be provided as input for the functions
  AgeS_Computation() and Age_OSLC14()
• create_FolderTemplates() creates the folder and file structures
  required by Generate_DataFile() and Generate_DataFile_MG() on
  the user’s hard drive