---
name: "seqsero"
section: "1"
platform: "linux"
package: "seqsero"
version: "1.0.1+dfsg-6"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/seqsero"
---

# seqsero(1)

Salmonella serotyping from genome sequencing data

## NAME

seqsero - Salmonella serotyping from genome sequencing data

## SYNOPSIS

**seqsero** **-m** \<data\_type\> **-i** \<input\_data\> \[-b \<BWA\_algorithm\>\]

## OPTIONS

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

  show this help message and exit

- **-m** {1,2,3,4}

  \<int\>: '1'(pair-end reads, interleaved),'2'(pair-end reads, seperated),'3'(single-end reads), '4'(assembly)

- **-i** I \[I ...\]

  \<string\>: path/to/input\_data

- **-b** {sam,mem}

  \<string\>: 'sam'(bwa samse/sampe), 'mem'(bwa mem), default=sam

## AUTHOR

SeqSero was developed by Shaokang Zhang (zskzsk@uga.edu) and Xiangyu Deng (xdeng@uga.edu)

Contact email:seqsero@gmail.com

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