表紙・目次 : 『千葉医学雑誌』 93巻3号 2017年6月

Exabayes phylogeny based on partitioned, concatenated analysis of 97 UCE loci (corresponding to our 100% complete matrix, with sequences of 55 of 55 taxa present for each locus)

WithNO_fossils_range_Holocentridae

range dat

With_fossils_range_Holocentridae

range dat

Dornburgetal_All_genesANDMorph

nexus data fil

resampled_withfossils.con

chronogram with fossil

flatfish_timetree_BMCeb

Fossil calibrated time-tree from BEAST dating analyses

UCE alignments, containing minimum of 41 taxa

UCE alignments containing a minimum of 41 of our 55 sampled taxa. Total of 1014 UCE loci alignments. Apologies for typos in a few taxa names

UCE alignments containing minimum of 52 taxa

UCE alignment files for 95% complete alignments (these alignments contain at least 52 of the 55 taxa from our analyses). Total of 596 UCE loci alignments. Apologies for typos in some taxa names

cichlidRAxML

Tree file resulting from RAxML analysis of the 10 nuclear gene dataset

random_sample_raxml

Python script for generating randomized nucleotide datasets of different lengths for analysis in RAxML. These were used to generate the rarefaction curves shown in the study. Requires docopt.py, which is not included