#NEXUS [written Wed Sep 29 09:16:42 PDT 2004 by Mesquite version 1.05 (build g24)] BEGIN TAXA; TITLE species; DIMENSIONS NTAX=16; TAXLABELS taxon_0 taxon_1 taxon_2 taxon_3 taxon_4 taxon_5 taxon_6 taxon_7 taxon_8 taxon_9 taxon_10 taxon_11 taxon_12 taxon_13 taxon_14 taxon_15 ; END; BEGIN CHARACTERS; TITLE Matrix_simulated_under_Brownian_motion; DIMENSIONS NCHAR=50; FORMAT DATATYPE = CONTINUOUS ITEMS = ( ) ; MATRIX taxon_0 2.992210463104165 -0.5213796212123114 -3.1933608712155848 -0.2380414477440551 3.069338067864813 0.6350921841170124 -2.6503509149104265 2.641646658530784 -5.059102625151112 -2.4386173699395433 2.5845701126632075 -2.0473976448968 -3.596960412307545 -0.8637710076749665 5.1307348768653815 -2.2774077261335 -5.772428413201568 -1.6210860251077548 -7.018314185792198 1.2784880654198518 0.26418598552638706 -2.962340357371817 -0.7451474147272754 -0.12016682211005533 1.333832991953333 -1.9820220917458642 1.7819622217844668 -0.4286168252544469 1.795046083754058 2.652213421504545 7.670205132731681 -0.7248674817380841 -2.0387807702867287 0.04071691899388907 3.1885224136085624 1.5326956826410756 -2.0411192380664396 1.0679997564600734 -2.9737368765346073 -0.998993949808622 3.8772535941999644 -2.899050659307263 3.111940122414367 -0.5078757021126066 -2.5555512348818663 -1.2496058031291895 -5.3209135461338 -3.2132506109745234 0.1760345130555176 -1.2041429276738413 taxon_1 -0.6159089185463594 2.8251237433505123 5.966914902224667 -1.3176328349660005 2.0941476552549565 0.44826630641625714 1.3996089919193146 -1.8532609049922442 1.194787888600039 3.1995846401899177 -3.3767991782135516 4.078721540595769 -1.8825066729903543 -2.1790587847454193 -2.341422971612696 -1.7221567195257916 6.488290666168001 -2.8157613471956098 2.140899424517751 7.42031539664155 3.1089578391529162 5.192756964318315 5.125858723642327 2.7855834150038055 -4.088988914259199 0.7636339756999861 6.710092803875183 6.080042718269267 -2.2331917282182645 4.378059635370082 -5.854460369408296 2.2949346974108815 1.6304418921819874 -2.9655391285075803 -3.550215162582551 4.141724864215471 1.6724873281164618 -5.767240631997499 2.170324163357657 -5.947640512522238 -0.853892797640129 -1.6393046633934993 -1.681871628707285 -4.301288081573986 8.734936776882801 3.1552145420177706 0.7470128600815709 5.353776200346818 -3.69307480676989 7.680837068321763 taxon_2 6.3624224064335975 1.8173101565294902 2.171088928715866 6.823934646313486 2.2604710950087457 3.8337119064827956 -6.464618023811242 3.1187400284883946 -1.046349744590067 -3.2087683040313095 -6.052522276296489 -0.7366381903523069 -6.31561123183821 -3.2944871838806615 0.9988153898179807 2.4419823617890932 -2.6115945171794124 -4.608438307935261 -1.363071804984885 -0.6911421370388441 6.866530892676542 2.8513577200354208 -2.433151696664187 -5.489272271532662 -2.308495464191093 -0.3591372230630081 2.1454965658865173 -0.1405526436443364 -0.9079738877819615 -4.6259610962668125 0.9964725009164546 -4.240685963370481 -2.316711789201114 4.777333012172514 -2.870476246718841 -3.496157826015133 -0.7184304266330752 6.872332691482216 -1.9468183051415946 3.98885173925657 -1.0494559525880875 2.8724559133094933 4.969518251272572 0.4783460019249923 6.429282273299414 6.667713665123945 -4.310152955576827 -1.8853842165643402 -2.523165702455672 -5.408622702797826 taxon_3 -5.201832848109966 -0.8746546751985125 4.859598341823185 -10.96477642311772 1.5204975201441648 1.3578425910414385 -2.2199189338672234 1.590256816332689 7.017491272025122 4.245976423341276 -3.278078452270021 1.6127812289970946 -4.607341873331669 -6.342903750993334 1.1298613943032256 -2.2320638717399603 2.315516487815637 -1.1952732127851067 4.335321394945093 4.36985762581831 0.8958525707555314 -3.9862985905926784 1.693317382658954 9.374992707026973 -2.4880839144774765 4.536915777338344 7.469573529327107 8.643267530626225 -3.16000655473264 1.3954298404783216 -4.113924716943122 1.1366911018712405 2.7523379648453075 0.21135894125504628 4.66810055665416 0.7893507224353902 4.589855965337723 -4.278243171177458 3.63432601371945 -2.350802018907585 -1.4587449773852095 -6.259644681624157 2.5444343937677902 -7.697645113969953 3.742946579512064 0.04135799879604185 3.570952158983406 1.7621666786331083 -2.9974881881740187 1.5799927778122225 taxon_4 -6.463485243641799 4.94421175499709 -2.853757463987187 3.3594087843644296 -1.5720253151370036 -4.99154712449598 7.825025262470588 -2.69097154924848 0.9841281873137764 -3.8362660792611787 -0.8817197347999509 -3.71810933723565 -8.94599184468518 1.1710322609471149 4.839513930438739 -5.970074190286658 0.3808855996973477 -0.07046063869206298 -0.5306946781829824 4.267848017580845 0.08983407407248434 -0.5579010333999708 -3.3421800569495304 8.319564395358586 1.7980669328726966 3.6972341143861303 7.4051818138182695 -1.5260887750935135 1.8488665987483048 -5.332055526132642 5.446796765387883 -1.1016534505101219 -5.685088511958088 -0.37730923776840575 -1.5411057363920837 6.961987939616119 -0.7714668846801699 5.490664733312178 -3.039117581377806 -1.4648632340854641 3.646512282679773 -9.78469566471315 -5.5644934027800375 -1.230497641353347 -4.9898982452553575 5.242606137274956 -0.3204028433951678 -2.1249965693539936 2.5926826825318043 -9.134354498947674 taxon_5 -3.235189667445917 -3.2074435127789394 -1.515072637351711 5.129019140711172 -0.2511919982420254 -6.004518295536943 9.66948839642005 -4.305809631395871 -4.847624054233453 -0.019721192643707197 -3.983032444626711 -4.866030864332769 -9.028562085137592 1.692067880252972 -1.9474799446120752 -7.434833286186466 -0.3539631783105346 -1.9777517687377841 0.9263836526145435 7.830049530228649 11.109393642392627 -3.74592278002007 -2.163920230281321 2.9687399740306013 -6.777474784216082 -5.322313846555923 7.258038267455178 -5.177603878943359 -1.908998404527779 0.25813938887819 0.6333061210851874 1.0711186553740437 -6.903208109120726 0.9941867144290049 -0.14000148092968423 2.3208278691450874 -4.914557108457754 3.5447366795977864 4.1283509266230265 -3.2831214257398176 5.9103613150160985 -3.2025366156073205 -0.4001808473123094 2.596724457843293 -7.702654707396869 3.278044663533515 0.458953542970562 1.6010084701173213 10.905687347874137 -7.410017297084473 taxon_6 -3.699479960972744 4.53800427959125 -2.066932104434697 8.985412472537655 0.22039166638329655 1.824272563477916 4.008793941929678 2.8248272016958165 -3.633177666559673 -6.540269125459169 -3.9091653752985 -3.1397185490353112 -5.004209616382209 6.245979201979994 -1.927228911994047 -2.2490196459708045 0.7092262026234639 2.8428511039597852 -5.027495383570602 0.54423943799513 -1.5850516247688553 -5.813920464408541 -1.9723175646893893 3.297508287197868 -4.121890237272859 -2.1906672137515715 -2.5647212409844724 -1.6040360378366836 2.13177753393053 -6.408858105884415 1.2891309412441374 1.159769290515452 0.04119556823555648 -4.306619046793046 0.22237859027133045 7.011731365372389 3.1367530556712753 -1.9851973867177128 -2.4508170817723887 -4.179998157792248 8.290017641640908 0.6434311372363434 -4.687921596081729 2.8046111244041048 -0.8212456294152074 0.8542866895157324 -2.550371316789558 -3.475989938975587 -3.816752514051866 -2.5563811563332566 taxon_7 -5.148929648774498 3.469933541841339 -2.3186344332896605 3.6093098490172038 0.44895247644908265 -9.684672098815653 10.145395609629364 -3.26196348111565 5.347583658716699 0.9412173429168371 -0.8176574653090629 -10.502749274710565 -14.584748449032737 -2.6917146090965565 5.6161136222092605 -10.434823776983642 -1.7715389666415304 -1.4385622858509435 1.5226896377309767 5.927830656878157 7.239808551702298 -0.15869558258888583 0.8629857843416985 4.64370493773493 1.5648211067744155 8.93824681742173 8.895404469816059 -2.177123905866375 -1.7103721197666366 -6.602830326503024 1.2309272851169513 3.7146983877013895 -4.855818138295894 -0.2252627917708439 -8.115511824914407 4.338287136319063 -6.720081127523443 6.416844525001331 4.49308944854158 -7.083634541394531 2.5089316886864745 -6.702409638452657 0.19601033616538976 1.5557246759426095 -5.218385387184489 1.2082685579206967 0.49503937117442876 0.38287176930953737 1.018833363453828 -5.321456696487146 taxon_8 0.5722443579091707 -0.10995907911662861 4.142286055744222 -3.0658070631071928 -0.4237265275489378 -1.8586288766488512 -4.053685422166835 -3.840380447936093 4.0638687078249 6.49228400466243 -2.091839846655442 4.646385456665855 -1.9443277487898516 -2.5977470505629467 5.044187992455365 -2.4210148238386133 2.292875746434741 0.546034857502701 -0.3262725062405689 6.269070297191394 -1.2105885924562547 4.20147718304619 2.8483200600485388 6.640649744753104 -1.0166497375739931 -0.6168057373425577 2.802816891407057 5.6335378581461715 -4.436877016882855 4.774458486072696 -1.4496484694521472 1.8227134443750517 4.281167312683058 -0.9693655585960292 1.7767277989832924 -1.0043744338204683 3.4581151609932195 -3.907664272216942 6.277856072904209 -5.678128970133203 0.970806719582655 -1.148595450893969 -0.9629984532534221 -0.42575843588267354 0.80466624979038 1.0870477874947486 2.098260781194403 0.9862965537506282 -6.715050890023075 -0.11350041111422549 taxon_9 -4.18262041797215 -2.7649886913304043 1.4296463397605161 -3.834727817597635 -0.465590068878241 -0.5383941766816311 -3.0284871108972857 -0.05629736619712772 5.980846426317518 6.825308412516355 -0.6900213963766032 2.7136291950043843 -2.7004152031103774 -3.4338999702432953 2.658337210121168 -3.0975278146446006 -1.7380400754317402 -1.365382508623073 3.834122630902766 7.615596786355233 -1.5221612800014603 -1.577214469703946 -0.31673152895328616 6.752084381819787 0.24461320894275657 4.037798399853933 5.808789032023899 4.2815304320779095 -2.181840473372508 4.253745342623702 -2.725347544736437 4.342768303330084 4.121397685587703 -1.8195658767499012 4.676486291813086 1.453794374527704 3.107702019551842 -5.565687411153125 3.3701235064099544 -2.2844406087780897 -0.3554008961264512 -2.4177120633980413 0.3228108805838046 -0.29163145002290114 0.5683905489267493 1.283861378806837 0.9450795587308347 0.815700672451076 -4.759441020156112 4.2019460646146 taxon_10 -0.7984014847917035 1.6645953040765509 -4.08077316600221 0.5373688677972157 1.490446117783925 -6.812190477068703 2.1380651790565577 0.07832692810750519 -1.5096393046752625 -6.498260815558502 -1.4702800155479006 0.028669847647889907 1.585379176078419 1.2633909156979837 -0.6905822798896253 0.05225244049801159 -0.9525178185661819 -2.5093527839800593 2.302359434929261 -3.373671143806518 5.1338367288843285 1.8789082289101515 -1.1449802406029406 4.520948211663615 -1.1678097468707889 -0.7658518677083612 0.4497266370331603 -5.005327975681178 0.593240537245384 -2.0624172877118467 10.525509652614799 -0.599110787120124 -1.03270007414403 -0.31088243244214075 4.77982135255517 7.048737433841094 -1.312648114112734 -3.1376720216818557 -2.3064278823111657 -0.7501611475794598 5.7938911994163655 -7.481930652870725 1.3884792914308703 0.2572156830074199 -0.5076956209592047 -3.015825908499033 4.47022547587248 -1.579576621829398 4.1163645780542275 0.061883852540211226 taxon_11 0.8360500930032865 3.7199644983362923 0.8451499732199488 7.4818579577105 -1.0788236234014275 0.9188853348675519 1.445067483480759 2.240917547533641 -3.825385769102208 -4.29889774641609 -6.324924163469797 -0.3145366572930186 -3.536017745052546 4.6853033878729455 -3.3298969876877558 -1.8119059547310918 -1.0305078754774941 2.161933705234238 -1.7718765640333531 1.2712904388409343 4.763405909619582 -5.7093921476256675 -4.981564546902445 6.121266970969877 -2.282250438289009 2.445126736867549 -1.2451583651096034 -1.1828835533344537 1.2486308790946352 -6.623605334113291 2.2704339787976133 -3.6170579181190803 -2.030218595278567 -5.1730977540793495 -0.7401932053653907 6.716142711271315 1.9303172645517237 0.22175035345217733 -6.975720326731873 -4.223297009344084 8.08626228074618 -0.9205858140102456 -2.4018308165632516 0.8272501165982016 -1.8689344091900828 0.952587616047728 -2.841501788436332 -2.2955602425886656 -3.3547123546310322 -1.4262039345594535 taxon_12 4.093418494872468 5.122811167228835 2.962067090000816 -0.3600342333113205 0.9845813939315629 1.3035777162553865 -1.607453932576031 0.3042689605306027 0.702455139273628 -3.3876169410138735 2.8641999351798066 3.174504680969588 -2.4488867416498348 2.2208158459534624 3.394037784646745 1.1269568659015419 5.588532817310609 -1.4239330049474042 0.4086880297748585 5.516669947018912 -0.42917631464815875 -0.2298713899902407 -0.30193982470331693 4.449894363161521 1.3684477293560398 -0.2584869576795583 5.163055127771319 6.682193195089983 1.821489898417851 -1.2115230296563029 1.9304448283708402 2.5533596147724285 3.8661408417466 -1.0861053830104712 -0.8060576625208266 0.7786870005069308 -0.06703151381538142 -2.768442083431684 4.306129260224428 -3.348528878626742 2.2054130229740574 -6.006312148040669 1.914522339691292 1.1273343750937705 -3.1664435644141706 1.4390866252447188 1.9178930612671765 5.140262578774443 -7.944489482726189 4.979348519651387 taxon_13 -8.617383286913775 5.366504683306542 -5.8457948614263024 7.117346683117635 2.4719309431084096 -10.9878149309132 6.206666666290314 -4.81355283878034 2.556481864248628 1.544607529026366 0.32771719963811274 -8.347194008599761 -11.8841639324856 0.0783224610589292 4.734256868586167 -5.0586763297713535 1.0247243033606428 2.71570126073173 0.9887901698910944 9.023420847965944 5.474188338073132 -2.9483436105022633 0.6301843990004704 4.953143907421322 0.34586533024462857 6.12791261540209 9.297863647271994 -2.824933933216417 0.45356022554437225 -2.9121584307308854 3.494636465801179 2.3436752314569347 -3.5310664969990606 2.3267975329007133 -6.040330366384742 3.285445372480659 -9.834874616713016 6.77555596751939 3.7032153754816948 -5.5025924341393075 9.59413402057828 -0.5094859048631646 -6.061043638283955 -2.6728044936237616 -3.391619666421211 3.240137601640589 -0.01842350743728599 -3.51012386998522 2.4967993822606585 -11.078578060185206 taxon_14 1.073353760505365 5.5734767990134735 -2.6843066156558515 5.677935472306026 -2.699643233128126 -2.728007905793043 -0.392790446305412 2.6458388804094986 -1.3060865093811895 -1.7520250611103338 0.1575923757219606 -0.8077917459859683 -3.9200291928398183 6.27052847533536 -0.32977023164093744 -0.3712239781314066 -1.7577272515336166 -0.5884619750569766 -0.5957274215226168 -0.3593748972020159 4.0348907086606 -2.7033121473612303 -3.4139018429061174 4.551128612056906 -1.4239836999966955 -1.1578263312984811 -2.252529504672524 -5.667165010823732 2.8634347862273777 -3.682652763630837 2.827268502641909 0.7567651620959162 -0.7869646378499152 -4.995396780565182 -0.745931283541611 5.835555838446897 3.737265633497629 -2.166996339778634 -3.2706002507277634 -2.6804968423093065 9.25930419097416 2.1448931513859235 1.2537695313470443 1.4939077817282298 -1.5130532738248923 1.4191687093887406 -1.456817347584686 -1.339229194021417 -0.09394674573952344 -2.2640810134164884 taxon_15 -12.444465554325378 4.836625200513874 -2.2657018000555906 5.28275932092579 -3.0404718381934486 -7.643380653321292 8.150185373958202 -4.598657218930686 -0.7608563739597207 -2.918546721420061 -1.7231515608650922 -3.403627855882959 -6.029797738139418 1.2895373765695695 2.08574412638709 -4.381707660719245 -2.222864063494854 1.648798837291138 0.13256620707433586 7.562033262921517 -0.5521287547663918 2.2010800670211257 -4.129730887884562 8.013380743209533 -2.8655472264901 5.229291691235364 9.108188453826383 -1.4219751759085024 1.1870846372560537 -4.671190081001982 6.127888778567955 3.642641381528749 -11.38851597825588 1.9397988079427542 -4.47185464188104 7.5380191906373675 -1.7769042119882306 6.334182727041377 1.39891725462765 -0.5325219918233925 2.8260268065582363 -6.534326212570642 -3.8899161705975134 -2.282362853558323 -6.499338595082964 8.273586276707144 -2.764740091846174 -1.730886586775291 0.15535847328174937 -9.454273481857522 ; END; BEGIN TREES; Title stored_trees; LINK Taxa = species; TRANSLATE 1 taxon_0, 2 taxon_1, 3 taxon_2, 4 taxon_3, 5 taxon_4, 6 taxon_5, 7 taxon_6, 8 taxon_7, 9 taxon_8, 10 taxon_9, 11 taxon_10, 12 taxon_11, 13 taxon_12, 14 taxon_13, 15 taxon_14, 16 taxon_15; TREE species_phylogeny = (((1:5.83,(11:8.833[%color = 5 ],(((7:2.0,12:1.778):1.857,15:1.857):3.2,(6:9.0[%color = 11 ],((8:4.0,14:3.5):4.0,(16:2.8,5:1.636):3.25):3.0):8.0):1.6):1.7):1.538,3:8.571[%color = 6 ]):1.857,(13:6.0,(((4:4.0,10:2.25):2.0,9:2.143):2.2,2:4.333):4.5):7.5):2.0; END; BEGIN ASSUMPTIONS; TYPESET * UNTITLED = Squared: 1 - 50; END; BEGIN MESQUITECHARMODELS; ProbModelSet * UNTITLED = Brownian_default: 1 - 50; END; Begin MESQUITE; MESQUITESCRIPTVERSION 2; TITLE AUTO; tell ProjectCoordinator; getEmployee #mesquite.minimal.ManageTaxa.ManageTaxa; tell It; setID 0 662863783909563173; endTell; getEmployee #mesquite.charMatrices.ManageCharacters.ManageCharacters; tell It; setID 0 2885845513937770954; checksum 0 284355860; endTell; getEmployee #mesquite.charMatrices.BasicDataWindowCoord.BasicDataWindowCoord; tell It; showDataWindow #2885845513937770954 #mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindowMaker; tell It; getWindow; tell It; setSize 397 222; setLocation 9 456; setFont SanSerif; setFontSize 10; onInfoBar; setExplanationSize 30; setAnnotationSize 20; getToolPalette; tell It; endTell; setTool mesquite.charMatrices.BasicDataWindowMaker.BasicDataWindow.arrow; setBackground White; toggleShowNames on; toggleTight off; toggleShowChanges on; toggleSeparateLines off; toggleShowStates on; toggleAutoWithCharNames on; toggleConstrainCW on; endTell; showWindow; getWindow; tell It; forceAutosize; endTell; getEmployee #mesquite.charMatrices.ColorCells.ColorCells; tell It; setColor Red; removeColor off; endTell; getEmployee #mesquite.ornamental.CellPictures.CellPictures; tell It; toggleSeparate off; toggleAA off; endTell; endTell; endTell; getEmployee #mesquite.trees.BasicTreeWindowCoord.BasicTreeWindowCoord; tell It; makeTreeWindow #662863783909563173 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 2151.964555237631.1796649727975159086; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.trees.SquareTree.SquareTree; tell It; setEdgeWidth 8; orientUp; getEmployee #mesquite.trees.NodeLocsStandard.NodeLocsStandard; tell It; stretchToggle off; branchLengthsToggle on; toggleScale on; toggleCenter on; toggleEven on; namesAngle ?; endTell; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; labelBranchLengths off; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setFont SanSerif; setFontSize 10; setColor Black; toggleColorPartition on; toggleShadePartition off; toggleNodeLabels on; toggleShowNames on; endTell; endTell; getTreeWindow; tell It; setSize 321 338; setLocation 8 7; setFont SanSerif; setFontSize 10; onInfoBar; setExplanationSize 20; setAnnotationSize 20; getToolPalette; tell It; endTell; setTreeNumber 1; toggleSizeToFit on; toggleTextOnTree off; endTell; showWindow; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; endTell; makeTreeWindow #662863783909563173 #mesquite.trees.BasicTreeWindowMaker.BasicTreeWindowMaker; tell It; setTreeSource #mesquite.trees.StoredTrees.StoredTrees; tell It; setTreeBlock 1; toggleUseWeights off; endTell; setAssignedID 2169.964555238096.1130981136534120104; getTreeDrawCoordinator #mesquite.trees.BasicTreeDrawCoordinator.BasicTreeDrawCoordinator; tell It; suppress; setTreeDrawer #mesquite.cont.PlotTree.PlotTree; tell It; setNodeLocs #mesquite.cont.NodeLocs2DPlot.NodeLocs2DPlot; tell It; hide; setAxis #mesquite.cont.MapContinuous.MapContinuous; tell It; getCharacterSource #mesquite.charMatrices.CharSrcCoordObed.CharSrcCoordObed; tell It; setCharacterSource #mesquite.rhetenor.CharFromOrdinations.CharFromOrdinations; tell It; getCharacterSource #mesquite.charMatrices.CharMatrixCoordIndep.CharMatrixCoordIndep; tell It; setCharacterSource #mesquite.charMatrices.StoredMatrices.StoredMatrices; tell It; setDataSet #2885845513937770954; endTell; endTell; setOrdinator #mesquite.rhetenor.PrincipalComponents.PrincipalComponents; setItem 0; endTell; endTell; setCharacter 2; setItem 0; getEmployee #mesquite.parsimony.ParsAncestralStates.ParsAncestralStates; tell It; setModelSource #mesquite.parsimony.CurrentParsModels.CurrentParsModels; tell It; setDefaultModel 13; endTell; getEmployee #mesquite.parsimony.ParsimonySquared.ParsimonySquared; tell It; toggleWeight on; endTell; endTell; endTell; toggleShowLegend on; setInitialOffsetX -253; setInitialOffsetY -129; setCurrentX 1; setCurrentY 2; show; endTell; setSpotDiameter 10; toggleShowInternals on; toggleShowTree on; endTell; setBackground White; setBranchColor Black; showNodeNumbers off; labelBranchLengths off; desuppress; getEmployee #mesquite.trees.BasicDrawTaxonNames.BasicDrawTaxonNames; tell It; setFont SanSerif; setFontSize 10; setColor Black; toggleColorPartition on; toggleShadePartition off; toggleNodeLabels on; toggleShowNames on; endTell; endTell; getTreeWindow; tell It; setSize 533 342; setLocation 348 22; setFont SanSerif; setFontSize 10; onInfoBar; setExplanationSize 20; setAnnotationSize 20; getToolPalette; tell It; endTell; setTreeNumber 1; toggleSizeToFit on; toggleTextOnTree off; endTell; showWindow; getEmployee #mesquite.ornamental.BranchNotes.BranchNotes; tell It; setAlwaysOn off; endTell; getEmployee #mesquite.trees.ColorBranches.ColorBranches; tell It; setColor Red; removeColor off; endTell; endTell; endTell; newAssistant #mesquite.basic.ExamplesNavigator.ExamplesNavigator; tell It; setNextFileName '10-pcaLiveSim.nex'; setPrevFileName '08-anoles.nex'; getWindow; tell It; setSize 439 142; setLocation 426 464; setFont SanSerif; setFontSize 10; offInfoBar; setExplanationSize 0; setAnnotationSize 0; setActive; setExplanation 'The tree above left was used to simulate evolution by Brownian motion to yield the data matrix shown at left. The same tree is plotted in PCA space calculated from the simulated characters. Notice that the different clades stand out clearly on the plot.^n'; setTitle Simulated_data; toggleFileNames off; setPrevButtonName Previous; setNextButtonName Next; endTell; showWindow; endTell; endTell; end;