variant_utils.h File Reference

#include "hts_memory.h"
#include "htslib/vcf.h"
#include <string>
#include <vector>

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Namespaces
	gamgee

Typedefs
using	gamgee::AlleleMask = std::vector< AlleleType >

Enumerations
enum	gamgee::AlleleType { gamgee::AlleleType::REFERENCE, gamgee::AlleleType::SNP, gamgee::AlleleType::INSERTION, gamgee::AlleleType::DELETION }

Functions
void	gamgee::subset_variant_samples (bcf_hdr_t *hdr_ptr, const std::vector< std::string > &samples, const bool include)
	allows the caller to include only selected samples in a Variant Reader. To create a sites only file, simply pass an empty vector of samples. More...
void	gamgee::merge_variant_headers (const std::shared_ptr< bcf_hdr_t > &dest_hdr_ptr, const std::shared_ptr< bcf_hdr_t > &src_hdr_ptr)
	merges a variant header into another More...