Usage: taxpasta standardise [OPTIONS] PROFILE
Standardise a taxonomic profile (alias: 'standardize').
╭─ Arguments ────────────────────────────────────────────────────────────────────────────────╮
│ * profile PATH A file containing a taxonomic profile. [required] │
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╭─ Options ──────────────────────────────────────────────────────────────────────────────────╮
│ * --profiler -p [bracken|centrifuge|diamond|ka The taxonomic profiler used. │
│ iju|kraken2|krakenuniq|megan6| [required] │
│ metaphlan|motus] │
│ * --output -o PATH The desired output file. By │
│ default, the file extension │
│ will be used to determine the │
│ output format. │
│ [required] │
│ --output-format [TSV|CSV|ODS|XLSX|arrow|parque The desired output format. │
│ t] Depending on the choice, │
│ additional package │
│ dependencies may apply. Will │
│ be parsed from the output file │
│ name but can be set │
│ explicitly. │
│ [default: None] │
│ --help -h Show this message and exit. │
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