Uploaded image for project: 'UGENE'
  1. UGENE
  2. UGENE-1709

Make algorithms aware of the circularity of a sequence

    XMLWordPrintable

    Details

    • Type: Epic
    • Status: Closed
    • Priority: Major
    • Resolution: Won't Fix
    • Affects Version/s: None
    • Fix Version/s: None
    • Component/s: Basic-Nucl
    • Labels:
    • Epic Name:
      Circular sequence analysis
    • Sprint:
      DEV-26/06/2014
    • Affect Type:
      Userdefined

      Description

      All UGENE algorithms must be aware that the sequence is circular. In other words they must annotate sequence (find patterns, find repeats, orfs, etc) on the start-end joint.

      When it is implemented, please, put the list of implemented algorithms in comments.

      Details: http://ugene.unipro.ru/forum/YaBB.pl?num=1369910696

        Attachments

          Issue Links

          is blocked by

          Improvement - An improvement or enhancement to an existing feature or task. UGENE-3153 Find pattern for circular sequences

          • Critical - Crashes, loss of data, severe memory leak.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. UGENE-3154 Modify seq.walker for circular sequneces

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. UGENE-3155 Circular sequences: autoannotations

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. UGENE-3230 FindAlgorithm region for circular sequences

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. UGENE-3315 Primer3 for circular sequences

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. UGENE-3316 NCBI BLAST for circular sequences

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. UGENE-3317 Local BLAST and BLAST+ for circular sequences

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. UGENE-3533 Circular region selection for auto-annotations and Smith-Waterman

          • Major - Major loss of function.
          • Closed

            Activity

              People

              Assignee:
              Unassigned
              Reporter:
              vaskin Yura Vaskin
              Watchers:
              1 Start watching this issue

                Dates

                Created:
                Updated:
                Resolved:

                  Time Tracking

                  Estimated:
                  Original Estimate - 1 day Original Estimate - 1 day
                  1d
                  Remaining:
                  Remaining Estimate - 2 days
                  2d
                  Logged:
                  Time Spent - Not Specified
                  Not Specified