Module erm41

Structs§

Erm41LofCall
Erm41LofRow 🔒
Erm41SusceptibilityCalls: All erm(41) susceptibility evidence for one sample, ready for UI display.

call_erm41_lof_snps 🔒: Maps each known loss-of-function SNP position to the base observed in the query sequence, adjusting for the alignment offset between reference and query coordinates.
empty_string_as_none 🔒
find_erm41_display_window 🔒
identify_sequence_erm41: Unlike identify_sequence_hsp65() and identify_sequence_rrl_ntm(), this only uses reference sequences extracted via sequences.toml and not the database fetched via fetch_myco_sequences().
is_susceptible_erm41: Returns susceptibility for an erm(41) call given the observed LOF SNP calls.
is_susceptible_erm41_by_lof_snps: Returns Some(true) if any observed SNP base is a known LOF alt (erm(41) inactivated → susceptible), or None if no LOF alt is observed.
is_susceptible_erm41_by_position28: Returns susceptibility based on position 28 alone, without considering LOF SNP calls.
parse_erm41_lof_snps 🔒: Parse loss-of-function SNPs for erm(41) from a ntm-db resistance CSV.
three_letter_to_one 🔒
translate_codon 🔒

Erm41LofSnpMap 🔒: Maps a reference position to (wt_base, alts) where alts maps each LoF alt base to (mutation_label, drug).