v0.7.0 - merge metaphlan

Added

• Added kraut make-mpa-table to merge multiple MetaPhlAn profile files into a single abundance table.
• Supports rank selection with --level/-l using rank letters or full names.

v0.6.0

New tool

This release adds kraut table-summary, a new command for tables produced by kraut make-table.

Improvements

make-table has also been improved. It now supports lineage-based labels with --add-lineage, making taxa easier to disambiguate in complex tables. It also performs stricter validation for duplicate sample names, duplicate taxon labels, and conflicting taxonomy for the same TaxID, with clearer errors that point users toward --taxid or --add-lineage when names are ambiguous.

v0.5.0

Kraut provides several subcommands for different tasks.

• single-report: Filter or reformat a single Kraken report.
• make-table: Build a configurable multi-sample abundance table.
• ma-export: Export reports for MicrobiomeAnalyst as counts.csv, taxonomy.csv, metadata.csv, and tree.nwk.
• alpha: Calculate alpha diversity metrics.
• beta: Calculate beta diversity distance matrices and ordination plots.
• dendrogram: Plot hierarchical clustering dendrograms.
• plot-single: Plot composition for one sample.
• plot-multi: Plot composition across multiple samples.
• split-combine-table: Split a KrakenTools combined table into ALL/LVL tables.

v0.3.0

• Add alpha diversity
• Add methods for ranks
• Refactor version support

v0.2.0 krautils

Adding plotting functions and CI

v0.1.0

publish