---
name: "CAT"
section: "1"
platform: "linux"
package: "cat-bat"
version: "5.3-2"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/CAT"
---

# CAT(1)

tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)

## NAME

CAT - tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)

## SYNOPSIS

**CAT** (prepare \| contigs \| bin \| bins \| add\_names \| summarise) \[-v / **--version\]** \[-h / **--help\]**

## DESCRIPTION

Run Contig Annotation Tool (CAT) or Bin Annotation Tool (BAT).

## OPTIONS

### Required choice:

- prepare

  Download database files and construct databases.

- contigs

  Run CAT.

- bin

  Run BAT on a single bin.

- bins

  Run BAT on a set of bins.

- add\_names

  Add taxonomic names to CAT or BAT output files.

- summarise

  Summarise a named CAT or BAT classification file.

### Optional arguments:

- **-v**, **--version**

  Print version information and exit.

- **-h**, **--help**

  Show this help message and exit.

## AUTHOR

 This manpage was written by Andreas Tille for the Debian distribution and\
  can be used for any other usage of the program.