This project is mirrored from https://:*****@github.com/Ensembl/ensembl.git. Pull mirroring updated .
  1. 03 Apr, 2007 3 commits
    • Andreas Kusalananda Kähäri's avatar
      Added new methods: · 89fbc961
      Andreas Kusalananda Kähäri authored
          $translation->cdna_start();    # or...
          $translation->cdna_start($transcript);
              # Returns the start position of the translation in cDNA
              # coordinates.  Providing the transcript explicitly speeds
              # things up a bit.  The transcript is used in a call to
              # $exon->cdna_coding_start($transcript);
      
          $translation->cdna_end();    # or...
          $translation->cdna_end($transcript);
              # Returns the end position of the translation in cDNA
              # coordinates.  Providing the transcript explicitly speeds
              # things up a bit.  The transcript is used in a call to
              # $exon->cdna_coding_end($transcript);
      
      
          $translation->genomic_start();
              # Returns the start position of the translation in genomic
              # coordinates on the forward strand.
      
          $translation->genomic_end();
              # Returns the end position of the translation in genomic
              # coordinates on the forward strand.
      89fbc961
    • Andreas Kusalananda Kähäri's avatar
      Added tests for cdna_start(), cdna_end(), cdna_coding_start(), · f249611d
      Andreas Kusalananda Kähäri authored
      cdna_coding_end(), coding_region_start(), and coding_region_end() on
      exons.
      
      Current API and test DB passes the tests.
      f249611d
    • Andreas Kusalananda Kähäri's avatar
      Added new methods: · 6520767f
      Andreas Kusalananda Kähäri authored
          $exon->cdna_start($transcript);
              # Returns the start position of the exon in cDNA coordinates.
      
          $exon->cdna_end($transcript);
              # Returns the end position of the exon in cDNA coordinates.
      
      
          $exon->cdna_coding_start($transcript);
              # Returns the start position of the coding region of the exon
              # in cDNA coordinates.  Returns undef if the whole exon is
              # non-coding.
      
          $exon->cdna_coding_end($transcript);
              # Returns the end position of the coding region of the exon
              # in cDNA coordinates.  Returns undef if the whole exon is
              # non-coding.
      
      
          $exon->coding_region_start($transcript);
              # Returns the start position of the coding region of the exon in
              # genomic coordinates on the forward strand.  Returns undef if
              # the whole exon is non-coding.
      
          $exon->coding_region_end($transcript);
              # Returns the end position of the coding region of the exon in
              # genomic coordinates on the forward strand.  Returns undef if
              # the whole exon is non-coding.
      
      
      Since an exon may be part of one or more transcripts, the relevant
      transcript must be given as argument ot these methods.
      6520767f
  2. 02 Apr, 2007 3 commits
  3. 30 Mar, 2007 2 commits
  4. 29 Mar, 2007 6 commits
  5. 27 Mar, 2007 2 commits
  6. 25 Mar, 2007 2 commits
  7. 24 Mar, 2007 2 commits
  8. 23 Mar, 2007 5 commits
  9. 22 Mar, 2007 2 commits
  10. 21 Mar, 2007 11 commits
  11. 20 Mar, 2007 2 commits