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  1. Jalview
  2. JAL-653

import of alignments via gff3 cigar annotation

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    Details

    • Type: New Feature
    • Status: In Progress
    • Priority: Major
    • Resolution: Unresolved
    • Affects Version/s: None
    • Fix Version/s: None
    • Component/s: file format issue
    • Labels:
      None

      Description

      GFF3 supports the representation of alignment via cigar strings, and these are commonly used to exchange reference/read and other nucleotide alignment data. It is also one of the compact representations used to exchange blast results involving protein sequences.

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          Issue Links

          depends on

          Bug - A problem which impairs or prevents the functions of the product. JAL-1907 NPE when loading a features file containing left angle bracket '<'

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

          Bug - A problem which impairs or prevents the functions of the product. JAL-1663 Cannot set colour of new feature type when creating new feature

          • Major - Major loss of function.
          • Closed

          Bug - A problem which impairs or prevents the functions of the product. JAL-1618 Miscellaneous Embl feature qualifiers not retrieved

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

          Task - A task that needs to be done. JAL-2330 Document what is/not supported by Jalview for GFF file input / output

          • Major - Major loss of function.
          • Open

            Activity

              People

              Assignee:
              gmungoc Mungo Carstairs
              Reporter:
              jprocter James Procter
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                Dates

                Created:
                Updated: