afs_estimate.hpp File Reference

#include "genesis/population/formats/simple_pileup_reader.hpp"
#include <string>
#include <vector>

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Classes
struct	AfsPileupRecord
	Helper to store the data of one pileup line/record needed for the Boitard et al Allele Frequency Estimation computation. More...

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

Functions
AfsPileupRecord	convert_to_afs_pileup_record (SimplePileupReader::Record const &record)
std::vector< double >	prob_cond_true_freq (size_t n, std::vector< bool > const &alleles, std::vector< unsigned char > const &phred_scores, bool unfolded)
std::vector< double >	prob_cond_true_freq_unfolded (size_t n, std::vector< bool > const &alleles, std::vector< unsigned char > const &phred_scores, bool invert_alleles)
template<class ForwardIterator >
void	process_conditional_probability (ForwardIterator begin, ForwardIterator end)
	Compute the conditional probabilities of AFs. This reimplements process_probCond from Boitard et al. More...