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Public Member Functions | Public Attributes

FastaReference Class Reference

Collaboration diagram for FastaReference:
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List of all members.

Public Member Functions

vector< FastaIndexEntryfindSequencesStartingWith (string seqnameStart)
vector< FastaIndexEntryfindSequencesStartingWith (string seqnameStart)
string getSequence (string seqname)
string getSequence (string seqname)
string getSubSequence (string seqname, int start, int length)
string getSubSequence (string seqname, int start, int length)
void open (string reffilename, bool usemmap=false)
void open (string reffilename, bool usemmap=false)
long unsigned int sequenceLength (string seqname)
long unsigned int sequenceLength (string seqname)
string sequenceNameStartingWith (string seqnameStart)
string sequenceNameStartingWith (string seqnameStart)

Public Attributes

FILE * file
void * filemm
string filename
size_t filesize
FastaIndexindex
bool usingmmap

Detailed Description

Definition at line 58 of file Fasta.h.


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

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