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Usage
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| networks | Comma delimited list of networks to summarize. | mandatory |
mode | a A number in {1,2,3,4,5}. 1: displayed trees. 2: backbone networks. 3: tree decomposition. 4: tripartition. 5: major trees. If the input networks only contain topologies without inheritance probabilities, the user should not use this mode. | mandatory |
| -n | if If specified, normalize input networks proportion, make their summation to be 1. Default value is false, which means no normalization. | optional |
-o outputFile | if If specified, the output file is outputFile. The default outputFile is SummarizeNetworks.txt under the user's directory. | optional |
Examples
Input networks have proportions.
Download: wheatExample.nex
Please don't copy and paste, since some illegal characters might be copied.
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#NEXUS BEGIN NETWORKS; Network net1=[&W 0.33]((((Ash,(At,TaD)))X#H1,Y#H2),((((Asp,TaB),X#H1),((TaA,Tu),Tm)))Y#H2); Network net2=[&W 0.33]((((Ash,(At,TaD)))X#H1,((Asp,TaB),((((TaA,Tu),Tm),X#H1))Y#H2)),Y#H2); Network net3=[&W 0.2]((((((Ash,(At,TaD)))X#H1,((Asp,TaB))Y#H2),((TaA,Tu),Tm)),X#H1),Y#H2); Network net4=[&W 0.07]((((((Ash,(At,TaD)))X#H1,((Asp,TaB))Y#H2),((TaA,Tu),Tm)),Y#H2),X#H1); Network net5=[&W 0.05]((((Ash,(At,TaD)))X#H1,((Asp,TaB))Y#H2),(((TaA,Tu),Tm),(X#H1,Y#H2))); END; BEGIN PHYLONET; SummarizeNetworks (net1,net2,net3,net4,net5) 2 -n; END; |
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