simple_pileup_common.cpp File Reference

#include "genesis/population/format/simple_pileup_common.hpp"
#include "genesis/population/function/functions.hpp"
#include "genesis/population/format/simple_pileup_input_stream.hpp"
#include <cassert>
#include <stdexcept>

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Namespaces
	genesis
	Container namespace for all symbols of genesis in order to keep them separate when used as a library.
	genesis::population

Functions
SampleCounts	convert_to_sample_counts (SimplePileupReader::Sample const &sample, unsigned char min_phred_score)
Variant	convert_to_variant (SimplePileupReader::Record const &record, unsigned char min_phred_score)
genesis::sequence::QualityEncoding	guess_pileup_quality_encoding (std::shared_ptr< utils::BaseInputSource > source, size_t max_lines=0)
	Guess the quality score encoding for an (m)pileup input, based on counts of how often each char appeared in the quality string (of the input pileup file for example). More...