Struct ProteinKernel 

pub struct ProteinKernel<State = Untrained> { /* private fields */ }

Kernel method for protein sequence analysis with physicochemical properties

This kernel incorporates amino acid substitution matrices and physicochemical properties for protein sequence comparison.

References

• Henikoff & Henikoff (1992): “Amino acid substitution matrices from protein blocks”

Implementations

impl ProteinKernel<Untrained>

pub fn new(pattern_length: usize, n_components: usize) -> Self

Create a new protein kernel

pub fn use_properties(self, use_properties: bool) -> Self

Set whether to use physicochemical properties

Trait Implementations

impl Default for ProteinKernel<Untrained>

fn default() -> Self

Returns the “default value” for a type.

impl Fit<ArrayBase<OwnedRepr<f64>, Dim<[usize; 2]>>, ()> for ProteinKernel<Untrained>

type Fitted = ProteinKernel<Trained>

The fitted model type

fn fit(self, x: &Array2<Float>, _y: &()) -> Result<Self::Fitted>

Fit the model to the provided data with validation

fn fit_with_validation( self, x: &X, y: &Y, _x_val: Option<&X>, _y_val: Option<&Y>, ) -> Result<(Self::Fitted, FitMetrics), SklearsError>

where Self: Sized,

Fit with custom validation and early stopping

impl Transform<ArrayBase<OwnedRepr<f64>, Dim<[usize; 2]>>> for ProteinKernel<Trained>

fn transform(&self, x: &Array2<Float>) -> Result<Array2<Float>>

Transform the input data