(July 21st, 2023)
plot_back_rates
corrected for MrBayes.plot_treerates_sgn
.(October 31st, 2022)
plot_back_rates
and updates on vignettes.(OCtober 20th, 2022)
get_pwt_rates
function exists now in two versionsget_pwt_rates_MrBayes
and get_pwt_rates_BEAST2
, and updates on plot_treerates_sgn
to handle BEAST2.(August 1st, 2022)
Implementation of functions for BEAST2 data now complete!
write_partitioned_alignments
) to write partitioned alignments based on the inferred clusters.get_clockrate_table
function exists now in two versions, get_clockrate_table_MrBayes
and get_clockrate_table_BEAST2
(July 8th, 2022)
drop.dummy.mb
) to remove "dummy" tip from Mr. Bayes summary trees and export tree accounting for metadata on the tips (for fully extinct clades).(June 27th, 2022)
drop.dummy.beast
, offset.to.dummy
, write.beast.treedata
, offset.to.dummy.metadata
) to handle trees with offsets as produced by the BEAST2 SA package for fully extinct cladesplot_treerates_sgn()
function update: outputs chosen thresholds and estimated rate values for each threshold.(May 12th, 2022)