How to understand the levels in the result file?

[billzt]

This is a row of my result

;SeqID	MislabeledLevel	OriginalLabel	ProposedLabel	Confidence	OriginalTaxonomyPath	ProposedTaxonomyPath	PerRankConfidence
MN952976	Domain		Pempheriformes	0.999	Metazoa;Chordata;Actinopteri;;Lactariidae;Lactarius;Lactarius lactarius	Metazoa;Chordata;Actinopteri;Pempheriformes	0.999;0.999;0.999;0.999

My question is:
(1)Why the MislabeledLevel is "Domain"?
(2)How to prepare the taxonomic annotations file in -t correctly? How to do if certain level is missing? Currently I just put an empty string there

[amkozlov]

Sorry for the late response.

SATIVA requires balanced taxonomy, i.e. all sequences should ideally have the same number of taxonomic levels, or at least the should be no 'holes' or empty labels.

In your example

Metazoa;Chordata;Actinopteri;;Lactariidae;Lactarius;Lactarius lactarius

should be replaced by

Metazoa;Chordata;Actinopteri;Perciformes;Lactariidae;Lactarius;Lactarius lactarius

according to Wikipedia

Should the label be indeed missing at some rank due to unbalanced taxonomy, you could introduce artificial (but non-empty!) label, e.g. PerciformesFamily1.

Finally, please add -x zoo option so specify that you are using zoological taxonomic code.