mirror of https://github.com/metabarcoding/obitools4.git synced 2026-04-30 12:00:39 +00:00

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Eric Coissac 8c7017a99d ⬆️ version bump to v4.5

- Update obioptions.Version from "Release 4.4.29" to "/v/ Release v5"
- Update version.txt from 4.29 → .30
(automated by Makefile)

2026-04-13 13:34:53 +02:00

`obitable`: Row-Oriented Data Table for Biological Sequences

The obitable package provides a lightweight, row-oriented data table structure (Table) for managing biological sequence metadata in Go.

Core Types:
- Header: An ordered column list (alias for stl4go.Ordered).
- Row: A flexible map from column names to values (map[string]interface{}).
- Table: Holds schema info via ColType (column → Go type) and a slice of rows.
Row Generators:
- RowFromMap: Wraps a generic map into a callable row accessor, substituting missing keys with navalue.
- RowFromBioSeq: Specialized generator for obiseq.BioSequence objects, mapping standard fields (id, sequence, etc.) and annotations dynamically.
Semantic Features:
- Supports heterogeneous data types per column (via reflect.Type).
- Enables uniform access to sequence metadata and custom annotations.
- Designed for interoperability with obiseq (OBITools4’s biological sequence module).
- Facilitates lazy or on-demand row construction—ideal for streaming pipelines.
Use Cases:
- Converting sequence datasets into tabular formats (e.g., for export, filtering).
- Building intermediate representations in bioinformatics workflows.

obitable: Row-Oriented Data Table for Biological Sequences