qiime phylogeny raxml (version 2019.4)

--i-alignment: ARTIFACT FeatureData[AlignedSequence] Aligned sequences to be used for phylogenetic reconstruction. [required]:

--p-seed: INTEGER Random number seed for the parsimony starting tree. This allows you to reproduce tree results. If not supplied then one will be randomly chosen. [optional]:

--p-n-searches: INTEGER The number of independent maximum likelihood Range(1, None) searches to perform. The single best scoring tree is returned. [default: 1]:

--p-raxml-version: :

--p-substitution-model: :

Construct a phylogenetic tree with RAxML.

Construct a phylogenetic tree with RAxML. See: https://sco.h-its.org/exelixis/web/software/raxml/

Parameters

alignment : FeatureData[AlignedSequence]: Aligned sequences to be used for phylogenetic reconstruction.
seed : Int, optional: Random number seed for the parsimony starting tree. This allows you to reproduce tree results. If not supplied then one will be randomly chosen.
n_searches : Int % Range(1, None), optional: The number of independent maximum likelihood searches to perform. The single best scoring tree is returned.
raxml_version : Str % Choices('Standard', 'SSE3', 'AVX2'), optional: Select a specific CPU optimization of RAxML to use. The SSE3 versions will run approximately 40% faster than the standard version. The AVX2 version will run 10-30% faster than the SSE3 version.
substitution_model : Str % Choices('GTRGAMMA', 'GTRGAMMAI', 'GTRCAT', 'GTRCATI'), optional: Model of Nucleotide Substitution.

Returns

tree : Phylogeny[Unrooted]: The resulting phylogenetic tree.