Struct EmOptions 

pub struct EmOptions {
    pub max_iter: u32,
    pub min_iter: u32,
    pub rel_diff_tol: f64,
    pub alpha_check_cutoff: f64,
    pub min_alpha: f64,
    pub use_vbem: bool,
    pub vb_prior: f64,
    pub per_nucleotide_prior: bool,
}

Optimizer configuration. Defaults mirror salmon’s command-line defaults.

Fields

max_iter: u32

min_iter: u32

rel_diff_tol: f64

relative-difference convergence tolerance

alpha_check_cutoff: f64

only transcripts with alpha above this participate in the convergence check

min_alpha: f64

abundances below this are truncated to zero on output

use_vbem: bool

use Variational Bayes EM instead of plain EM

vb_prior: f64

per-transcript Dirichlet prior (VBEM only)

per_nucleotide_prior: bool

interpret vb_prior as a per-nucleotide prior (vb_prior * effLen) instead of a flat per-transcript prior (salmon’s --perNucleotidePrior; salmon’s default is the per-transcript interpretation).

Trait Implementations

impl Clone for EmOptions

fn clone(&self) -> EmOptions

Returns a duplicate of the value.

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

Performs copy-assignment from source.

impl Debug for EmOptions

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

Formats the value using the given formatter.

impl Default for EmOptions

fn default() -> Self

Returns the “default value” for a type.