Eric Coissac
8c7017a99d
- Update obioptions.Version from "Release 4.4.29" to "/v/ Release v5" - Update version.txt from 4.29 → .30 (automated by Makefile)
1.4 KiB
Semantic Description of obiseq Package Functionalities
This Go package provides sequence filtering predicates for biological sequences, integrated with taxonomic validation and hierarchy analysis.
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IsAValidTaxon(taxonomy, ...bool) SequencePredicate:
Returns a predicate that checks whether a sequence has an associated valid taxon in the given taxonomy.
Optionally supports auto-correction of outdated/incorrecttaxidvalues to match the current taxonomy node. -
IsSubCladeOf(taxonomy, parent) SequencePredicate:
Filters sequences whose taxonomic assignment is a descendant (sub-clade) of the specifiedparenttaxon. -
IsSubCladeOfSlot(taxonomy, key) SequencePredicate:
Enables filtering based on a sequence attribute (e.g.,"taxon"or"classification") that holds a taxonomic label.
Validates the label against the taxonomy, then checks if the sequence’s assigned taxon falls under it. -
HasRequiredRank(taxonomy, rank) SequencePredicate:
Ensures the sequence’s taxon is assigned at or below a specified rank (e.g.,"species","genus").
Validates the requestedrankagainst taxonomy’s rank list; exits on invalid input.
All predicates follow a functional, composable design pattern (SequencePredicate = func(*BioSequence) bool), enabling flexible pipeline construction (e.g., filtering, classification validation).