How to Install and Uninstall kaptive Package on Ubuntu 21.04 (Hirsute Hippo)

Last updated: May 20,2024

1. Install "kaptive" package

This guide let you learn how to install kaptive on Ubuntu 21.04 (Hirsute Hippo)


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

Please follow the step by step instructions below to uninstall kaptive on Ubuntu 21.04 (Hirsute Hippo):


    
        
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                sudo apt remove
            
                        
                kaptive
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the kaptive package on Ubuntu 21.04 (Hirsute Hippo)

Package: kaptive
Architecture: all
Version: 0.7.3-1
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: 108
Depends: python3:any, python3-biopython, ncbi-blast+
Suggests: kaptive-data, kaptive-example
Filename: pool/universe/k/kaptive/kaptive_0.7.3-1_all.deb
Size: 32244
MD5sum: f55a667128b94f26d06668a528755fc0
SHA1: 96e28e09c810333e17182da7c454e7143abdad0e
SHA256: 6456ebaf5bb0d8983fb4dc840dd8adc611505b89fc7f21478015fb23c49a1d12
SHA512: c42100af3ec8a3d7be35ef288f4f0febd25079cb1e17fa53361e5ddaf798953410a12e6268fe15fa76f5663cf0f592c6b1f21c4541dd0237faa003ce59546f62
Homepage: https://github.com/katholt/Kaptive
Description-en: obtain information about K and O types for Klebsiella genome assemblies
Kaptive reports information about K and O types for Klebsiella genome
assemblies.
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Given a novel genome and a database of known loci (K or O), Kaptive will
help a user to decide whether their sample has a known or novel locus.
It carries out the following for each input assembly:
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* BLAST for all known locus nucleotide sequences (using blastn) to
identify the best match ('best' defined as having the highest
coverage).
* Extract the region(s) of the assembly which correspond to the BLAST
hits (i.e. the locus sequence in the assembly) and save it to a
FASTA file.
* BLAST for all known locus genes (using tblastn) to identify which
expected genes (genes in the best matching locus) are present/missing
and whether any unexpected genes (genes from other loci) are present.
* Output a summary to a table file.
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In cases where your input assembly closely matches a known locus,
Kaptive should make that obvious. When your assembly has a novel type,
that too should be clear. However, Kaptive cannot reliably extract or
annotate locus sequences for totally novel types - if it indicates a
novel locus is present then extracting and annotating the sequence is up
to you! Very poor assemblies can confound the results, so be sure to
closely examine any case where the locus sequence in your assembly is
broken into multiple pieces.
Description-md5: 96dbd0eadee18b136a9def4564674290