deeplotyper.data_models

Functions

TypedDict(typename[, fields, total])	A simple typed namespace.
dataclass([cls, init, repr, eq, order, ...])	Add dunder methods based on the fields defined in the class.
field(*[, default, default_factory, init, ...])	Return an object to identify dataclass fields.

Classes

Base	alias of str
BaseCoordinateMapping(global_position, ...)	Maps a single base between global, genomic, and transcript coordinates.
CodonCoordinateMapping(codon_index, codon, ...)	Maps a codon and its amino acid across genomic and transcript coordinates.
CodonIndex	alias of int
ExonDef	Definition of an exon segment.
HaplotypeEvent(pos0, ref_allele, alt_seq)	A single variant event relative to a reference haplotype.
MappingEntry	Mapping between transcript and genomic indices.
NewTranscriptSequences([exon_sequences, ...])	Constructed sequences and maps after applying haplotype events.
Position	alias of int
RawBase(region, position, base)	A raw base in a given region before any alignment or mapping.
Region	alias of str
SequenceMappingResult([base_mappings, ...])	Result of mapping an entire transcript against the genome at base resolution.
TranscriptMappingResult([...])	Comprehensive mapping results for a single transcript.