A library for working with phylogenetic data.
v0.25.0
BaseCounts Struct Reference

#include <genesis/population/base_counts.hpp>

Detailed Description

One set of nucleotide base counts, for example for a given sample that represents a pool of sequenced individuals.

This class is a general representation of the read counts (frequencies) contained in the variants/SNPs of (a pool of) individuals at a certain chromosome position. The class only stores theses counts; for the additional container that also captures the chromosome and position, see Variant and VariantMatrix.

Definition at line 53 of file base_counts.hpp.

Public Attributes

size_t a_count = 0
 Count of all A nucleotides that are present in the sample. More...
 
size_t c_count = 0
 Count of all C nucleotides that are present in the sample. More...
 
size_t d_count = 0
 Count of all deleted (*) nucleotides that are present in the sample. More...
 
size_t g_count = 0
 Count of all G nucleotides that are present in the sample. More...
 
size_t n_count = 0
 Count of all N (undetermined/any) nucleotides that are present in the sample. More...
 
size_t t_count = 0
 Count of all T nucleotides that are present in the sample. More...
 

Member Data Documentation

◆ a_count

size_t a_count = 0

Count of all A nucleotides that are present in the sample.

Definition at line 58 of file base_counts.hpp.

◆ c_count

size_t c_count = 0

Count of all C nucleotides that are present in the sample.

Definition at line 63 of file base_counts.hpp.

◆ d_count

size_t d_count = 0

Count of all deleted (*) nucleotides that are present in the sample.

Definition at line 83 of file base_counts.hpp.

◆ g_count

size_t g_count = 0

Count of all G nucleotides that are present in the sample.

Definition at line 68 of file base_counts.hpp.

◆ n_count

size_t n_count = 0

Count of all N (undetermined/any) nucleotides that are present in the sample.

Definition at line 78 of file base_counts.hpp.

◆ t_count

size_t t_count = 0

Count of all T nucleotides that are present in the sample.

Definition at line 73 of file base_counts.hpp.


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