Struct RegexPattern 

pub struct RegexPattern { /* private fields */ }

Regex-method pattern using named capture groups.

Groups starting with umi_ are extracted as UMI, cell_ as cell barcode, discard_ as bases to remove. Everything else is kept in the output sequence.

Implementations

impl RegexPattern

pub fn parse(pattern_str: &str) -> Result<Self, ExtractError>

Parse a regex pattern string.

Errors

Returns error if the regex is invalid or has no umi_ or cell_ groups.

pub fn extract( &self, sequence: &[u8], quality: &[u8], ) -> Result<ExtractionResult, ExtractError>

Extract barcodes from a read’s sequence and quality strings.

Errors

Returns RegexNoMatch if the regex doesn’t match the sequence.

Trait Implementations

impl Clone for RegexPattern

fn clone(&self) -> RegexPattern

Returns a duplicate of the value.

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

Performs copy-assignment from source.

impl Debug for RegexPattern

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

Formats the value using the given formatter.