---
name: "VFDB_cdhit_to_csv"
section: "1"
platform: "linux"
package: "srst2"
version: "0.2.0-13"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/VFDB_cdhit_to_csv"
---

# VFDB\_cdhit\_to\_csv(1)

Parse cdhit results

## NAME

VFDB\_cdhit\_to\_csv - Parse cdhit results

## SYNOPSIS

**VFDB\_cdhit\_to\_csv** \[-h\] **--cluster\_file** CLUSTER\_FILE **--infile** INFILE **--outfile** OUTFILE

## DESCRIPTION

This tool is part of the SRST2 suite.

Output a comma-separated table of alleles, their inferred gene name (from annotation) and their 90% cluster from CD-HIT analysis

## OPTIONS

### optional arguments:

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

  show this help message and exit

- **--cluster\_file** CLUSTER\_FILE

  cd hit output file (.clstr)

- **--infile** INFILE

  raw sequences file that was input to cdhit (fasta)

- **--outfile** OUTFILE

  output file (csv)

## AUTHOR

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