kraut

table-summary

Summarizes a wide abundance table produced by kraut make-table.

Syntax

kraut table-summary [OPTIONS] INPUT_FILE

Arguments

Argument	Type	Description
INPUT_FILE	PATH	Required. A table produced by kraut make-table.

Options

Option	Short	Type	Description
--top-taxa		INTEGER	Number of top taxa to report (default: 10).
--output	-o	PATH	Save the summary report to a text file (default: stdout).

Report Contents

The report includes:

• Table size as samples x taxa.
• Total counts per sample when the table contains counts.
• Top taxa across the table, calculated after normalising each sample so larger samples do not dominate the ranking.

Relative abundance tables skip the total counts section.

Examples

kraut make-table reports/*.tsv -o species_table.tsv
kraut table-summary species_table.tsv --top-taxa 20 -o species_summary.txt

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