readfilter.hpp File Reference

#include <vector>
#include <cstdlib>
#include <iostream>
#include <string>
#include <regex>
#include <fstream>
#include <sstream>
#include "vg.hpp"
#include "handle.hpp"
#include "IntervalTree.h"
#include "annotation.hpp"
#include "multipath_alignment_emitter.hpp"
#include "progressive.hpp"
#include <vg/io/alignment_emitter.hpp>
#include <vg/vg.pb.h>
#include <vg/io/stream.hpp>
#include <google/protobuf/util/json_util.h>
#include <htslib/khash.h>

Classes
class	vg::ReadFilter< Read >
struct	vg::Counts

Namespaces
	vg

Functions
ostream &	vg::operator<< (ostream &os, const Counts &counts)

Detailed Description

Provides a way to filter and transform reads, implementing the bulk of the vg filter command.