re-running

[Bruce Murphy]

Hi,

I've run iqtree with the following settings:

iqtree -s input.fasta -nt AUTO -ntmax 32 -m MFP+MERGE -rclusterf 10 -spp partitions.txt

I forgot to do ultrafastbootstraps. I'd like to either do ultrafastbootstraps separately without wasting time recalculating the ML tree, or, if I can't do that, re-run the tree finding with bootstraps but without repeating the modelfinder and partitionfinder process - i.e. using the model and partition scheme. I'm not sure how to do this.

Thanks

[Minh Bui]

Hi Bruce,

This was answered: https://groups.google.com/forum/#!topic/iqtree/mA7-OIaHm9Y

Fortunately, you can still omit ModelFinder process to save time. From your previous run, IQ-TREE printed the *.best_scheme.nex file, which stores the best partition model. You can supply this file to the -spp option, and IQ-TREE will load all models from this file.

Cheers,

Minh

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