Module rrs 

Structs

ResistanceVariant 🔒

RrsSnpCall

RrsSusceptibilityCalls

All rrs susceptibility evidence for one sample, ready for UI display.

Statics

RRS_REFS 🔒

Parsed and substring-deduplicated rrs reference sequences, initialised once.

RRS_RESISTANCE_SNPS 🔒

Functions

call_rrs_snps 🔒

identify_sequence_16s

Align query against every Mycobacteriaceae 16S rRNA reference in REF_MYCO_RRS and return all hits sorted by identity (highest first).

is_susceptible_rrs

Returns Some(false) if any observed SNP base is a resistance-conferring alt, or None if no resistance alt is observed.

is_susceptible_rrs_by_snp_calls_rare

Returns Some(false) if any observed SNP base is a resistance-conferring alt, or None otherwise. Parallel to is_susceptible_rrl_by_snp_calls_rare: rrs has no position-based anchor call, so all SNP resistance here is inherently not explained by a position mutation.

parse_rrs_resistance_snps 🔒

Type Aliases

RrsSnpMap 🔒

Maps a reference position to (wt_base, alts) where alts maps each resistance alt to (drugs, E.coli nomenclature).