cgatools::command::Junction2Vcf Class Reference

Inheritance diagram for cgatools::command::Junction2Vcf:

List of all members.

Public Member Functions
	Junction2Vcf (const std::string &name)
Protected Member Functions
int	run (po::variables_map &vm)
	The actual code of the command goes here.
void	saveVcf (std::ostream &out)
Protected Attributes
std::string	referenceFileName_
std::string	outputFileName_
std::string	junctionsFileName_
size_t	scoreThreshold_
size_t	minJunctionLength_
boost::shared_ptr < reference::CrrFile >	reference_
boost::shared_ptr < junctions::JunctionFiles >	junctionFiles_

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Member Function Documentation

int cgatools::command::Junction2Vcf::run

(

po::variables_map &

vm

)

[protected, virtual]

The actual code of the command goes here.

Throw exceptions to communicate errors.

Implements cgatools::command::Command.

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

• Junction2Vcf.hpp