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nova_empirical_data
Empirical SNP dataset for Carex nova. These data were used to create summary statistics in arlsumstat for comparison with modeled data in the ABC procedure. They also informed... -
"Micromorphological data"
Dataset of the 23 micromorphological characters from 66 specimens belonging to Carex sect. Heleoglochin and relatives -
settings_chalciolepis_splatche
This is an example of a settings file for a single Splatche run. The Splatche documentation describes all of the options within the file in detail. The file can be viewed and... -
Supplementary Data 1
Supplementary Data 1. Raw fossil data. Repository and Specimen indicate the collection in which specimen is held and its specimen number. Family, Subfamily, Tribe, Genus, and... -
chal_empirical_data
Empirical SNP dataset for Carex chalciolepis. These data were used to create summary statistics in arlsumstat for comparison with modeled data in the ABC procedure. They also... -
Individual flow cytometry data points, Carex subgenus Vignea
Flow cytometry data were analyzed in FlowJo software to estimate genome sizes, following protocols described in the publication associated with this dataset. This Excel... -
chalciolepis_ABCsampler_input_file
This is an example of an input file used by the ABCsampler program. It defines the values that need to be updated at every new iteration (in capital letters - taken from the... -
Parameters for Pyrad
This file contains the Pyrad parameters file that was used to create the SNP dataset that was used (after modification) in ML and SVDquartets analyses. -
Supplemental Data 5
Reference tree. Topology revealed by the all-nrDNA matrix of concatenated sequences of ETS, ITS and matK. Branches with support below 50% bootstrap are collapsed. -
create_mask
This is an R script that creates a text file describing the pattern of missing data in an empirical dataset (see example mask file 'chal_missing_example' created from... -
Supplemental Appendix 1
Preliminary assingment to sections according previously published data (see main text for details). -
Supplemental Data 2
List of materials included in each of the three aporrhaid species treated in the text, organized by locality (Fig. 1) and indicating ammonoid zones. Additional materials are... -
chalciolepis_empirical_summary_stats
This is an example of the empirical summary statistics that must be included in the simulation folder. This file was created using arlsumstat program and the empirical dataset... -
Niu ,He& Lechowiczl_Data_JAE
Collected in the field; Site abbreviation: AZ=AaZi, WLK=WaLaKa,HY=HongYuan,QH=QingHai, NQ=NaQu -
dedup_wf_001--556b48555cbbba21a7f210b43251bade
This file contains the SNP data used for the ML analysis. A key to species codes is given in a separate file. -
Supplemental Data 6
Query tree. Topology revealed by the all-sequences matrix constrained by the reference tree, using concatenated sequences of ETS, ITS and matK. Branches with support below 75%... -
"RAxML_ETS.2014.08.21.raxd"
Phylogenetic tree obtained after conducted the RAxML analysis of the ETS dataset -
germination_data
Per run germination data for a bluebunch wheatgrass genecology study conducted in 2007-2008. UID = for each germination run. SITE = garden site: CF = Central Ferry, WA; LP =...