Palyoplot: R Package for Quaternary Science data visualization

• palyoplot_0.0.17.tgz (04/22/2024) -- LATEST
• palyoplot_0.0.16.tar.gz (07/19/2022)
• palyoplot_0.0.15.tar.gz [sample v0.0.15 R file - built-in data](08/10/2021)
• palyoplot_0.0.14.tar.gz (02/20/2020)
• palyoplot_0.0.13.tar.gz (03/13/2019)
• palyoplot_0.0.12.tar.gz [sample v0.0.12 R file - built-in data] (03/11/2019)
• palyoplot_0.0.11.tar.gz (03/10/2019)
• palyoplot_0.0.10.tgz (02/28/2019)
• palyoplot_0.0.9.tar.gz [sample v0.0.9 R file - built-in data] (02/27/2019)

To install using R Studio, go to Tools > Install Packages > Install from: Package archive file, then select the downloaded file (ex: palyoplot_0.0.8.tar.gz)

THE START OF A TUTORIAL IS NOW AVAILABLE!!!

1. Basic plotting (using built-in data)
2. Stacked data plotting (using built-in data)
3. Appending graph diagrams (using built-in data)
4. Index data plotting (using built-in data)
5. Setting up your datasets

Samples

• basic R demo file using built-in data (0.0.11 onwards)
• sample R file using built-in data (0.0.12 onwards)
• sample R file using built-in data (pre 0.0.10 parameter names)
• age_model.txt (pp_agemodel)
• lifeform_types.txt (pp_lifeForms, pp_colors, pp_taxaGroups)
• pollen_counts.csv (pp_data)
• taxa_list.txt (pp_taxaList, pp_fontStyles)

• sample R file using files (zipped below)
• sample.zip

CHANGELOG
0.0.17

FIXES
• Updated to account for changes in ggplot

CHANGES
• Added parameter y.reverse (TRUE/FALSE) to plot* functions. Defaults to NULL

KNOWN ISSUE
• In palyoplot_plotTaxa(), y.break not exactly honored (may round to value R thinks is "cleaner")

FIXES
• Updated imported library dependencies
• Internal naming fixes
• Corrected help file formatting for PDF production
• Updated import dependencies

CHANGES
• New function: palyoplot_plotOverlaidIndices() allows for multiple indices on one plot

FIXES
• palyoplot_plotTaxa() now adjusts taxaGroup values when taxa with 0 counts are sent to the function (previously would throw an error due to mismatch)
• palyoplot_plotStackedTaxa second y-axis drawn in correct order
• Lots of Help file updates correcting argument names
• Fixes to plotting functions

CHANGES
• Now uses tidyr (reshape2 deprecated)

• I genuinely don't remember but I think it was a local copy I was making bug fixes on.

FIXES
• palyoplot_plotTaxa()
  • x.break was not applied correctly. Fixed
  • zonation lines were sometimes appearing on the wrong axis. Should be as expected again
  • zonation lines were not continuous across spaces between graphs. This was a feature accidentally removed. Put back in
• palyoplot_plotStackedTaxa() was not applying zonation lines at all. Fixed
• palyoplot_plotIndex() zonation lines were not working as expected. Fixed

CHANGES
• Parameter names changes have been completed for all helper functions to offer greater consistency and naming expectations. Please see help files. Includes, but not limited to palyoplot_assignAges(), palyoplot_get2ndAxis(), palyoplot_getTaxaGroups(), palyoplot_getColorsGroups(), palyoplot_getFontStyles(), palyoplot_convertPercentages(), palyoplot_getTaxaNamesByGroup(), palyoplot_getTaxaGroups(), and palyoplot_mergeDataUnder()
• PLEASE NOTE existing tutorials have been updated to the new naming conventions as of this version.

FIXES
• palyoplot_plotTaxa() had a bug with disabling line.e10x (the 10x exagerration line) after the renaming structure.

CHANGES
• Parameter names have changed for palyoplot_plotTaxa(), palyoplot_plotStackedTaxa() to offer greater consistency and naming expectations. Please see help files. This was mostly for formatting variables

NEW
• Plotting index graphs now avaialable via palyoplot_plotIndexTaxa()
• Appending graphs to create one larger graphc now available via palyoplot_appendGraphs()

FIXES
• palyoplot_plotStackedTaxa()
  • Added missing R help file
  • Removed required parameter fontstyles as it isn't used
  • Added parameters axis.title.x.hjust and axis.title.x.vjust for consistency with palyoplot_plotTaxa() and to offer additional formatting options
  • Fixed error where plotting would fail if ybreaks were not passed in
  • Fixed error where custom colors were not applying correctly/as expected
  • Corrected issue where the order of taxa were not displaying as expected (first item should be far left, was far right)
  • Now allows a NULL ylim (will automatically grab top and bottom primary y-axis values) for consistency with palyoplot_plotTaxa()

FIXES
• Corrected built-in datasets
• palyoplot_plotTaxa()
  • Fixed correctly displaying limited dataset (based on ylim. Was not consistent)
  • Now allows a NULL ylim (will automatically grab top and bottom primary y-axis values)
  • Corrected error where the ylabel would not display unless breaks were specified