Task Name: query
Annotates a sequence in compliance with a UGENE Query Language (UQL) schema. This allows to analyze a sequence using different algorithms at the same time imposing constraints on the positional relationship of the results.
To learn more about the UQL schemas read the Query Designer Manual.
Parameters:
in — semicolon-separated list of input sequence files. [String, Required]
out — output Genbank file with the annotations. [String, Required]
schema — UQL schema. [String, Required]
merge — if true, merges regions of each result into a single annotation. [Boolean, Optional, Default: false]
offset — if merge is set to true, specified left and right offsets for merged annotations. [Number, Optional, Default: 0]
Example:
ugene query --in=input.fa --out=result.gb --schema=RepeatsWithORF.uql