Class Gapped

Description
Description | Vars | Methods (details) Constants

Gapped

Gapped sequences

  • author: Bio::Python port
  • author: Mark Brooks <markabrooks@users.sourceforge.net>
  • version: 0.8.2
  • copyright: 2004-2008 Mark Brooks <markabrooks@users.sourceforge.net>

Located in /Alphabet/Alphabet.php (line 681) 

PEAR
   |
   --Bio
      |
      --AlphabetEncoder
         |
         --Gapped
Method Summary
Description | Constants Vars | Methods (details)
$this __construct (string $alphabet, [string $cGap = '-'])
char getGappedChar ()
void setGappedChar (char $cGap)
Variables
Description | Vars (details) Constants | Methods (details)

Inherited Variables

Inherited from Bio

Bio::$bWarnings
Methods
Description | Vars Constants Methods (details)
Constructor __construct (line 699)

function __construct

  • uses:
$this __construct (string $alphabet, [string $cGap = '-'])
  • string $alphabet
  • string $cGap
Redefinition of:
AlphabetEncoder::__construct()
function __construct
getGappedChar (line 734)

function getGappedChar

Accessor for gaps

char getGappedChar ()
setGappedChar (line 718)

function setGappedChar

Set the Character for gaps in sequences

void setGappedChar (char $cGap)
  • char $cGap

Inherited Methods

Inherited From AlphabetEncoder

AlphabetEncoder::__construct()
AlphabetEncoder::getAlphabet()
AlphabetEncoder::getLetters()
AlphabetEncoder::setAlphabet()
AlphabetEncoder::setLetters()

Inherited From Bio

Bio::__construct()
Bio::printWithNl()
Class Constants
Description | Constants (details) Vars | Methods (details)

Inherited Constants

Inherited from Bio

Bio::NEWLINE

Documentation generated on Sun, 28 Sep 2008 11:09:03 +0200 by phpDocumentor 1.4.2