Unimplemented methods in BioPerl

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These are a collection of modules which contain unimplemented methods. These do not include interface classes (as described in Advanced BioPerl), but are modules which haven't implemented methods described in an interface.

Bio::Assembly::Contig

Total unimplemented methods: 25

  • average_percentage_identity
  • column_from_residue_number
  • consensus_iupac
  • consensus_string
  • each_alphabetically
  • each_seq_with_id
  • gap_char
  • is_flush
  • length
  • map_chars
  • match
  • match_char
  • match_line
  • maxname_length
  • missing_char
  • overall_percentage_identity
  • purge
  • select
  • select_noncont
  • set_displayname_count
  • slice
  • sort_alphabetically
  • symbol_chars
  • unmatch
  • uppercase

Bio::Restriction::IO

Bio::AlignIO

The following modules currently do not have write_aln() methods implemented. Note also that a few of these also do not completely parse data in the file, such as meta data. A notable exception is Stockholm multiple alignment format, which now has implemented a write_aln() method and parses annotation and meta data.

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