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Add option to set AA substitution model for raxml #29

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iimog opened this issue Jul 19, 2018 · 1 comment
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Add option to set AA substitution model for raxml #29

iimog opened this issue Jul 19, 2018 · 1 comment
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iimog commented Jul 19, 2018

The AA substitution model for the partitions is currently hardcoded to WAG. This choice is a little arbitrary so it should be possible for the user to change one of the other valid options in raxml 8:
DAYHOFF, DCMUT, JTT, MTREV, WAG, RTREV, CPREV, VT, BLOSUM62, MTMAM, LG,
MTART, MTZOA, PMB, HIVB, HIVW, JTTDCMUT, FLU, STMTREV, DUMMY, DUMMY2, AUTO,
LG4M, LG4X, PROT_FILE, GTR_UNLINKED, GTR

Also using AUTO as default might be a more sensible choice.
If we change this default behaviour the minor version number should be increased by one.

@iimog iimog added this to the 1.1.0 milestone Jul 19, 2018
@iimog iimog self-assigned this Jul 19, 2018
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iimog commented Jul 19, 2018

Needs to be added to the GUI as well

@iimog iimog added the GUI label Jul 19, 2018
@iimog iimog closed this as completed in 5d2cf3e Jul 20, 2018
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