#NEXUS
[written Tue Feb 11 17:31:57 PST 2025 by Mesquite  version 3.61 (build 927) at H2WFV0CHPJJ9/134.10.99.5]

BEGIN TAXA;
	TITLE Taxa;
	DIMENSIONS NTAX=17;
	TAXLABELS
		Berberis Mahonia Ranzania Caulophyllum Leontice Gymnospermium Bongardia Podophyllum Dysosma Diphylleia Achlys Epimedium Vancouveria Jeffersonia Plagiorhegma Thalictrum Coptis 
	;

END;


BEGIN CHARACTERS;
	TITLE  Character_Matrix;
	DIMENSIONS  NCHAR=15;
	FORMAT DATATYPE = STANDARD RESPECTCASE GAP = - MISSING = ? SYMBOLS = "  a b";
	CHARSTATELABELS 
		1 characcter_14,
		2 characcter_15,
		3 characcter_16,
		4 characcter_17,
		5 characcter_18,
		6 characcter_19,
		7 characcter_20,
		8 characcter_21,
		9 characcter_22,
		10 characcter_23,
		11 characcter_24,
		12 characcter_25,
		13 characcter_26,
		14 characcter_29,
		15 characcter_30 ; 
	MATRIX
	Berberis       bbaaaababababba
	Mahonia        bbaaaababababba
	Ranzania       bbaaaababbbbbba
	Caulophyllum   bbbaabbaaabaaab
	Leontice       bbbaabbaaabaaab
	Gymnospermium  bbbaabbaaaaaaab
	Bongardia      bbbaabbaaabaaab
	Podophyllum    aabbbbbabbbbbab
	Dysosma        bababbbabbbbbab
	Diphylleia     babaabbabbbabbb
	Achlys         babbababbababab
	Epimedium      bbbaabbbbbaabab
	Vancouveria    bbbaababbbaabab
	Jeffersonia    abbaabbbbbaabab
	Plagiorhegma   abbaabbbbbaabab
	Thalictrum     ???????????????
	Coptis         ???????????????

;

END;
BEGIN ASSUMPTIONS;
	OPTIONS DEFTYPE = ord PolyTcount = MINSTEPS;
	TYPESET * UNTITLED   =  unord:  1- 15;

	WTSET penny  =  285: 1 1, 538: 2 2, 615: 3 3 6 15, 0: 4 4, 838: 5 5, 352: 7 7, 539: 8 8, 676: 9 9 13, 308: 10 10, 330: 11 11, 230: 12 12, 445: 14 14;

END;

BEGIN TREES;
	Title 'Trees from "Berberidaceae_Veg.nex"';
	ID 0194f7b412261;
	LINK Taxa = Taxa;
	TRANSLATE
[0] 		1 Berberis,
[1] 		2 Mahonia,
[2] 		3 Ranzania,
[3] 		4 Caulophyllum,
[4] 		5 Leontice,
[5] 		6 Gymnospermium,
[6] 		7 Bongardia,
[7] 		8 Podophyllum,
[8] 		9 Dysosma,
[9] 		10 Diphylleia,
[10] 		11 Achlys,
[11] 		12 Epimedium,
[12] 		13 Vancouveria,
[13] 		14 Jeffersonia,
[14] 		15 Plagiorhegma,
[15] 		16 Thalictrum,
[16] 		17 Coptis;
	TREE PAUP_1 = (1,(2,(3,((4,(5,6)),((7,(11,((12,13),(14,15)))),((8,9),10))))));

END;


BEGIN MACCLADE;
Version 3.05;
LastModified -1198613192;
Singles 1000& / 0;

END;
BEGIN MESQUITECHARMODELS;
	ProbModelSet * UNTITLED   =  'Mk1 (est.)':  1- 15;
END;

Begin MESQUITE;
		MESQUITESCRIPTVERSION 2;
		TITLE AUTO;
		tell ProjectCoordinator;
		timeSaved 1739323917063;
		getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa;
		tell It;
			setID 0 6278551698769610580;
		endTell;
		getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters;
		tell It;
			setID 0 7081253889614949645;
			mqVersion 361;
			checksumv 0 3 3079424181 null  getNumChars 15 numChars 15 getNumTaxa 17 numTaxa 17   short true   bits 3   states 3   sumSquaresStatesOnly 609.0 sumSquares 609.0 longCompressibleToShort false usingShortMatrix true   NumFiles 1 NumMatrices 1;
			mqVersion;
		endTell;
		getWindow;
		tell It;
			suppress;
			setResourcesState false false 100;
			setPopoutState 300;
			setExplanationSize 0;
			setAnnotationSize 0;
			setFontIncAnnot 0;
			setFontIncExp 0;
			setSize 1411 538;
			setLocation 8 25;
			setFont SanSerif;
			setFontSize 10;
			getToolPalette;
			tell It;
			endTell;
			desuppress;
		endTell;
		getEmployee  #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord;
		tell It;
			showDataWindow #7081253889614949645 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker;
			tell It;
				getWindow;
				tell It;
					setExplanationSize 30;
					setAnnotationSize 20;
					setFontIncAnnot 0;
					setFontIncExp 0;
					setSize 1311 466;
					setLocation 8 25;
					setFont SanSerif;
					setFontSize 10;
					getToolPalette;
					tell It;
						setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam;
					endTell;
					setActive;
					setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.ibeam;
					colorCells  #mesquite.charMatrices.NoColor.NoColor;
					colorRowNames  #mesquite.charMatrices.TaxonGroupColor.TaxonGroupColor;
					colorColumnNames  #mesquite.charMatrices.CharGroupColor.CharGroupColor;
					colorText  #mesquite.charMatrices.NoColor.NoColor;
					setBackground White;
					toggleShowNames on;
					toggleShowTaxonNames on;
					toggleTight off;
					toggleThinRows off;
					toggleShowChanges on;
					toggleSeparateLines off;
					toggleShowStates on;
					toggleReduceCellBorders off;
					toggleAutoWCharNames on;
					toggleAutoTaxonNames off;
					toggleShowDefaultCharNames off;
					toggleConstrainCW on;
					toggleBirdsEye off;
					toggleShowPaleGrid off;
					toggleShowPaleCellColors off;
					toggleShowPaleExcluded off;
					togglePaleInapplicable on;
					togglePaleMissing off;
					toggleShowBoldCellText off;
					toggleAllowAutosize on;
					toggleColorsPanel off;
					toggleDiagonal on;
					setDiagonalHeight 80;
					toggleLinkedScrolling on;
					toggleScrollLinkedTables off;
				endTell;
				showWindow;
				getWindow;
				tell It;
					forceAutosize;
				endTell;
				getEmployee #mesquite.charMatrices.AlterData.AlterData;
				tell It;
					toggleBySubmenus off;
				endTell;
				getEmployee #mesquite.charMatrices.ColorByState.ColorByState;
				tell It;
					setStateLimit 9;
					toggleUniformMaximum on;
				endTell;
				getEmployee #mesquite.charMatrices.ColorCells.ColorCells;
				tell It;
					setColor Red;
					removeColor off;
				endTell;
				getEmployee #mesquite.categ.StateNamesStrip.StateNamesStrip;
				tell It;
					showStrip off;
				endTell;
				getEmployee #mesquite.charMatrices.AnnotPanel.AnnotPanel;
				tell It;
					togglePanel off;
				endTell;
				getEmployee #mesquite.charMatrices.CharReferenceStrip.CharReferenceStrip;
				tell It;
					showStrip off;
				endTell;
				getEmployee #mesquite.charMatrices.QuickKeySelector.QuickKeySelector;
				tell It;
					autotabOff;
				endTell;
				getEmployee #mesquite.charMatrices.SelSummaryStrip.SelSummaryStrip;
				tell It;
					showStrip off;
				endTell;
				getEmployee #mesquite.categ.SmallStateNamesEditor.SmallStateNamesEditor;
				tell It;
					panelOpen true;
				endTell;
			endTell;
		endTell;
		endTell;
end;