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  1. Jalview
  2. JAL-838

extend jalview's PID routine to allow different types of PIDs to be calculated

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    Details

    • Type: Improvement
    • Status: In Progress
    • Priority: Major
    • Resolution: Unresolved
    • Affects Version/s: None
    • Fix Version/s: None
    • Component/s: None
    • Labels:
      None

      Description

      The PID routine currently implemented in jalview provides no options for the way in which it counts gaps or computes the maximum length. New switches need to be included to allow different types of PID calculations to be made.

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          Epic - Created by Jira Software - do not edit or delete. Issue type for a big user story that needs to be broken down. JAL-837 improve range of percent identity calculations and range of functions that use them

          • Major - Major loss of function.
          • Open
          related with

          Task - A task that needs to be done. JAL-2403 refactor ScoreMatrix.computePairwiseScores(String[])

          • Major - Major loss of function.
          • Closed

          Improvement - An improvement or enhancement to an existing feature or task. JAL-1632 Dialog to create/edit tree calculation settings

          • Blocker - Blocks development and/or testing work, production could not run.
          • Closed

          Bug - A problem which impairs or prevents the functions of the product. JAL-374 PID pairwise distance miscalculated as zero for unaligned sequences in UPGMA tree view

          • Minor - Minor loss of function, or other problem where easy workaround is present.
          • In Progress

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              Assignee:
              gmungoc Mungo Carstairs
              Reporter:
              jprocter James Procter
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                Dates

                Created:
                Updated: