The selection choice offered for tools and analyses is based on the DATATYPE and NTAXA in your uploaded file:

	DNA_DATATYPE or RNA_DATATYPE	AA_DATATYPE	ALL OTHERS
ML GTR+I+G	GARLI (for ntaxa < 100) Recidcm3-GARLI (for ntaxa >= 100) Coming Soon
ML GTR+G	RaXML(for ntaxa < 500) Recidcm3-RaXML(for ntaxa >= 500) GARLI(for ntaxa < 100) Recidcm3-GARLI(for ntaxa >= 500) Coming Soon
WAG+Gamma+F		RaXML(for ntaxa < 500) Recidcm3-RaXML(for ntaxa >= 500)
MP	PAUP(for ntaxa < 100) Recidcm3-PAUP(for ntaxa >= 100) Coming Soon	PAUP(for ntaxa < 100) Recidcm3-PAUP(for ntaxa >= 100) Coming Soon	PAUP(for ntaxa < 100) Recidcm3-PAUP(for ntaxa >= 100) Coming Soon

ML = Maximum likelihood tree inference
MP = Parsimony tree inference
GTR+I+G = General time reversible model with Gamma-distributed among- site rate heterogeneity and invariant sites
GTR+G = General time reversible model with Gamma-distributed among- site rate heterogeneity
WAG+Gamma+F = WAG + Gamma + Empirical State Frequencies