Annotating Sequence with UQL Schema

Task Name: query

Annotates a sequence in compliance with a UGENE Query Language (UQL) schema. This allows the analysis of a sequence using different algorithms while 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, specifies left and right offsets for merged annotations. [Number, Optional, Default: 0]

Example:

ugene query –in=input.fa –out=result.gb –schema=RepeatsWithORF.uql

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