Struct Genotype 

pub struct Genotype { /* private fields */ }

A parsed genotype for a single sample at a variant site.

Alleles are 0-indexed where 0 means reference and 1+ means the Nth alternate allele. None represents a missing allele (. in VCF).

Implementations

impl Genotype

pub fn parse(gt: &str) -> Result<Self>

Parse a VCF GT field string (e.g. "0/1", "1|0", "0|1|2", "./.", "0").

Returns the parsed genotype with allele indices and phasing information.

Errors

Returns an error if the GT string is empty or contains invalid allele values.

pub fn alleles(&self) -> &[Option<usize>]

Return the allele indices (one per haplotype).

pub fn is_phased(&self) -> bool

Return whether this genotype is phased.

pub fn ploidy(&self) -> usize

Return the ploidy (number of allele slots) at this site.

pub fn has_alt(&self) -> bool

Return true if any allele is non-reference (index > 0).

pub fn is_hom_alt(&self) -> bool

Return true if all alleles are the same non-reference allele.

pub fn is_hom_ref(&self) -> bool

Return true if all alleles are reference (index 0).

Trait Implementations

impl Clone for Genotype

fn clone(&self) -> Genotype

Returns a duplicate of the value.

fn clone_from(&mut self, source: &Self)

Performs copy-assignment from source.

impl Debug for Genotype

fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter.

impl PartialEq for Genotype

fn eq(&self, other: &Genotype) -> bool

Tests for self and other values to be equal, and is used by ==.

fn ne(&self, other: &Rhs) -> bool

Tests for !=. The default implementation is almost always sufficient, and should not be overridden without very good reason.

impl Eq for Genotype

impl StructuralPartialEq for Genotype