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  1. UGENE
  2. UGENE-5949

Incorrect parameters for tandem repeats search

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    • Story Points:
      3
    • Sprint:
      DEV-30-7
    • Affect Type:
      Userdefined

      Description

      1. Rename "Find tandems..." in the "Actions > Analyze" group in main menu and "Analyze" group in the SV context menu to "Find tandem repeats...".
      2. Rename the "Find Tandems" dialog to "Find Tandem Repeats".
      3. Rename the first tab in the dialog to "General", the second one to "Output".
      4. Move "Save annotation(s) to" and "Annotation parameters" to the "Output" tab.
      5. Move parameters from the "Advanced parameters" group to the "Tandem finder parameters" group on the first page, delete the empty group.
      6. Rename "Tandem finder parameters" to "Settings".
      7. Rename "Region to process" to "Search in".
      8. Rename "Tandem preset" to "Preset settings".
      9. Rename "Min period" to "Min length of repeated sequence".
      10. Rename "Max period" to "Max length of repeated sequence".
      11. Rename "Minimum tandem size" to "Min length of tandem repeat".
      12. Rename "Minimum repeat count" to "Min number of repeats".
      13. Possibly, modify the settings order inside the group.
      14. Change the qualifiers in the result annotations:
        • Rename "repeat_len" to "num_of_repeats".
        • Add a new qualifier "repeat_length". The value should be the actual length of a repeated sequence.
        • Rename "tandem_size" to "whole_length".

      See also: http://insilico.ehu.es/mini_tools/microsatellites/.

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              Assignee:
              dsukhomlinov Dmitrii Sukhomlinov
              Reporter:
              oigl Olga Golosova
              Assigned Tester:
              Kirill Rasputin
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                Created:
                Updated:
                Resolved: