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Bayesian Inference

 

#NEXUS

BEGIN TREES;

Tree gt1 = (((DF,MZ),(DG,MK)),MC);
Tree gt2 = (((DF,(MK,MZ)),DG),MC);
Tree gt3 = (((DF,MK),(MC,MZ)),DG);
Tree gt4 = ((DF,(MC,(MK,MZ))),DG);
Tree gt5 = (DF,((DG,(MC,MZ)),MK));
Tree gt6 = (((DF,DG),MK),(MC,MZ));
Tree gt7 = ((((DF,DG),MC),MZ),MK);
Tree gt8 = (((DF,MK),MZ),(DG,MC));
Tree gt9 = ((DF,(DG,MC)),(MK,MZ));
Tree gt10 = (((DF,MC),(DG,MK)),MZ);

END;

BEGIN PHYLONET;
MCMC_GT (gt1-gt10) -cl 10000 -bl 5000 -sf 1000;
END;

#NEXUS

 

BEGIN NETWORKS;
Network net1 = (((F:1,K:1):1,G:1):1,C:1):1;
Network net2 = ((F:1,(C:1,K:1):1):1,G:1):1;
END;

BEGIN TREES;

Tree gt1 = (((DF,MZ),(DG,MK)),MC);
Tree gt2 = (((DF,(MK,MZ)),DG),MC);
Tree gt3 = (((DF,MK),(MC,MZ)),DG);
Tree gt4 = ((DF,(MC,(MK,MZ))),DG);
Tree gt5 = (DF,((DG,(MC,MZ)),MK));
Tree gt6 = (((DF,DG),MK),(MC,MZ));
Tree gt7 = ((((DF,DG),MC),MZ),MK);
Tree gt8 = (((DF,MK),MZ),(DG,MC));
Tree gt9 = ((DF,(DG,MC)),(MK,MZ));
Tree gt10 = (((DF,MC),(DG,MK)),MZ);

END;

BEGIN PHYLONET;
MCMC_GT ({gt1-gt2}, {gt3-gt4}, {gt5-gt6}, {gt7-gt8}, {gt9-gt10}) -cl 10000 -bl 5000 -sf 1000 -sd 12345 -pp 0.1 -mr 3 -pl 4 -tp (1.0,2.0) -sn (net1,net2) -tm <F:DF;G:DG;K:MK;C:MC,MZ>;
END;

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