Trees       Indices       Help   
DIGEST
Module DIGEST_functions :: Class alignmentSAM
[hide private]
[frames] | no frames]

Class alignmentSAM

source code

object --+
         |
        alignmentSAM

New alignmentSAM object from a line of a SAM file, see SAM format for more informations

Instance Methods [hide private]
 
__init__(self, ligne)
Initialize the alignmentSAM class		 source code

Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __repr__, __setattr__, __sizeof__, __str__, __subclasshook__

Class Variables [hide private]
Cigar CIGAR
Cigar
integer Flag
SAM flag
integer Length
alignment length
integer MAPQ
mapping quality score
string PNEXT
Position of the primary alignment of the NEXT read
integer Pos
start alignment position on the subject sequence
string Query
query sequence ID
string QuerySequence
query nucleotide sequence
string RNEXT
Reference sequence name of the primary alignment of the NEXT read
string Subject
Subject sequence ID
Properties [hide private]

Inherited from object: __class__

Method Details [hide private]

__init__(self, ligne)
(Constructor)

source code 

Initialize the alignmentSAM class

Parameters:
  • ligne (list) - SAM alignment line
Overrides: object.__init__

   Trees       Indices       Help   
DIGEST
Generated by Epydoc 3.0.1 on Wed Oct 1 11:20:39 2014 http://epydoc.sourceforge.net