Sequence alignment files: - AllGenes_wOutgroup_Mcoccinea_ndhF.nexus - AllGenes_wOutgroup_Mcoccinea_matK.nexus - AllGenes_wOutgroup_Mcoccinea_trnLF.nexus - AllGenes_wOutgroup_Mcoccinea_Waxy.nexus - AllGenes_wOutgroup_Mcoccinea_ITS.nexus Phylogenetic reconstruction: - BEAST_Solanaceae_Beauti.xml (follows Sarkinen et al. 2013) - BEAST_Solanaceae_Beauti_diffPriors.xml (follows De-Silva et al. 2017) Phylogenetic trees: - BEAST_MCC_SolanaceaeTree.tre (follows Sarkinen et al. 2013) - BEAST_MCC_SolanaceaeTree_diffPriors.tre (follows De-Silva et al. 2017) Ancestral state reconstruction (to produce Figure 1): - ASR_Bisse_Red.R BAMM analysis: - BAMM_RedSolanaceae_controlFile.txt - BAMM_RedSolanaceae_SamplingFractions.txt Calculating tippy metrics: - TippyMetricCalculations.R - TippyMetrics_functions.R