Version 4.1.5

SequenceSet Class Reference

Set of Sequence objects. More...

#include <seqpp/SequenceSet.h>

Inheritance diagram for SequenceSet:

List of all members.

Public Member Functions
	SequenceSet ()
	Default constructor.
	SequenceSet (const string &seq_list_file, const string &alpha_file, short order, int nbseq=BUFFERSEQ)
	constructor with a alphabet-needed file
	SequenceSet (const string &seq_list_file, short mode, const string &line2parse, bool case_sensitivity, short order, int nbseq=BUFFERSEQ)
	constructor with a alphabet-needed line2parse

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Detailed Description

Set of Sequence objects.

from :

• a Fasta file (with 1 or more sequences inside separated by a line beginning with a SKIPCHAR) or a Genbank file
  
• or a file containing the name of many Fasta (or a Genbank) sequence files
  

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Constructor & Destructor Documentation

SequenceSet::SequenceSet (  const string &  seq_list_file, const string &  alpha_file, short  order, int  nbseq = BUFFERSEQ )

constructor with a alphabet-needed file Parameters: seq_list_file  file, among the 3 possibilities of files. alpha_file  file for initializing the alphabet (see Translator doc) order  Markovian order, nbseq  number of sequences

SequenceSet::SequenceSet (  const string &  seq_list_file, short  mode, const string &  line2parse, bool  case_sensitivity, short  order, int  nbseq = BUFFERSEQ )

constructor with a alphabet-needed line2parse Parameters: seq_list_file  file, among the 3 possibilities of files. mode  number of char for a token in the alphabet line2parse  string for initializing the alphabet (see Translator doc) case_sensitivity  true for being case sensitive order  Markovian order, nbseq  number of sequences

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The documentation for this class was generated from the following files:

• SequenceSet.h
• SequenceSet.cc

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Contributors : M.Baudry, P.Y.Bourguignon, M.Hoebeke, V.Miele, P.Nicolas, G.Nuel, H.Richard, D.Robelin

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