How to Install and Uninstall seqsero Package on Ubuntu 21.10 (Impish Indri)

Last updated: May 20,2024

1. Install "seqsero" package

This guide covers the steps necessary to install seqsero on Ubuntu 21.10 (Impish Indri)


    
        
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                sudo apt update
            
                    
    
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                sudo apt install
            
                        
                seqsero
            
                    
    
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2. Uninstall "seqsero" package

Please follow the instructions below to uninstall seqsero on Ubuntu 21.10 (Impish Indri):


    
        
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                sudo apt remove
            
                        
                seqsero
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the seqsero package on Ubuntu 21.10 (Impish Indri)

Package: seqsero
Architecture: all
Version: 1.0.1+dfsg-4
Priority: optional
Section: universe/science
Origin: Ubuntu
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Bugs: https://bugs.launchpad.net/ubuntu/+filebug
Installed-Size: 3491
Depends: python3:any, python3-biopython, bwa, samtools, sra-toolkit
Suggests: ispcr
Filename: pool/universe/s/seqsero/seqsero_1.0.1+dfsg-4_all.deb
Size: 357948
MD5sum: 973da48ff908a15abfbcc77d181626ba
SHA1: b78c57616ffe4b41c75c915a41642a3f70d50570
SHA256: 1519bfc582a31f8226ef53a68b1268c3365e8adb8677d7305d0f84f511b9a562
SHA512: 4ea8b535a7e91dc481163fc82113a04916587dc4ddc63d00583d800b246e13aeca023ce33e337af884bd55265860b85eee9b29f2e4c28eb02e9f7c4b02f2fb25
Homepage: https://github.com/denglab/SeqSero
Description-en: Salmonella serotyping from genome sequencing data
SeqSero is a pipeline for Salmonella serotype determination from raw
sequencing reads or genome assemblies.
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SeqSero is a novel tool for determining Salmonella serotypes using high-
throughput genome sequencing data. SeqSero is based on curated databases
of Salmonella serotype determinants (rfb gene cluster, fliC and fljB
alleles) and is predicted to determine serotype rapidly and accurately
for nearly the full spectrum of Salmonella serotypes (more than 2,300
serotypes), from both raw sequencing reads and genome assemblies. The
performance of SeqSero was evaluated by testing
1. raw reads from genomes of 308 Salmonella isolates of known serotype
2. raw reads from genomes of 3,306 Salmonella isolates sequenced and
made publicly available by GenomeTrakr, a U.S. national monitoring
network operated by the Food and Drug Administration; and
3. 354 other publicly available draft or complete Salmonella genomes.
SeqSero can help to maintain the well-established utility of Salmonella
serotyping when integrated into a platform of WGS-based pathogen
subtyping and characterization.
Description-md5: 8a40b6660777f02ab6eed37f09c29dc5