Module OverviewΒΆ

Module Classes Description
Variant Object Representation
hgvs.edit hgvs.edit classes implement various kinds of sequence edits. For nucleic acids, these edits are independent of location; amino acids edits currently contain the location.
hgvs.hgvsposition A non-standard representation of a sequence location without an edit. For example, NM_012345.6:c.72+5_73-2.
hgvs.location Various kinds of locations. Interval is a span from start to end; the others are points in a sequence.
hgvs.posedit A position+edit (really, an interval and edit).
hgvs.variant
hgvs.variant.SequenceVariant
A sequence variant of any type (g, c, m, r, n, p). A SequenceVariant is returned by hgvs.parser.Parser, and it is the input and output type for hgvs.variantmapper.VariantMapper operations.
Parsing and Formatting
hgvs.parser  
Coordinate, Interval, and Variant Mapping/Transformation
hgvs.intervalmapper  
hgvs.projector  
hgvs.transcriptmapper  
hgvs.variantmapper  
Variant Normalization and Validation
hgvs.normalizer  
hgvs.validator  
External Data Providers
hgvs.dataproviders.interface  
hgvs.dataproviders.uta