How to Install and Uninstall sim4db Package on Kali Linux

Last updated: May 17,2024

1. Install "sim4db" package

Learn how to install sim4db on Kali Linux


    
        
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                sudo apt update
            
                    
    
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                sudo apt install
            
                        
                sim4db
            
                    
    
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2. Uninstall "sim4db" package

In this section, we are going to explain the necessary steps to uninstall sim4db on Kali Linux:


    
        
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                sudo apt remove
            
                        
                sim4db
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the sim4db package on Kali Linux

Package: sim4db
Source: kmer (0~20150903+r2013-8)
Version: 0~20150903+r2013-8+b3
Installed-Size: 3308
Maintainer: Debian Med Packaging Team
Architecture: amd64
Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2)
Recommends: leaff, kmer-examples
Size: 441288
SHA256: 8c9bcac106ad80e82793a0f76db821afcfb33841fb397f5a6e6b38ce9b98be5e
SHA1: 5f84e1362266efb48c5f79c8353f54f937a1712f
MD5sum: 2df098b2fd77a5d1ebf0f4cb57447a4e
Description: batch spliced alignment of cDNA sequences to a target genome
Sim4db performs fast batch alignment of large cDNA (EST, mRNA) sequence
sets to a set of eukaryotic genomic regions. It uses the sim4 and sim4cc
algorithms to determine the alignments, but incorporates a fast sequence
indexing and retrieval mechanism, implemented in the sister package
'leaff', to speedily process large volumes of sequences.
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While sim4db produces alignments in the same way as sim4 or sim4cc, it
has additional features to make it more amenable for use with whole-genome
annotation pipelines. A script file can be used to group pairings between
cDNAs and their corresponding genomic regions, to be aligned as one run
and using the same set of parameters. Sim4db also optionally reports more
than one alignment for the same cDNA within a genomic region, as long
as they meet user-defined criteria such as minimum length, percentage
sequence identity or coverage. This feature is instrumental in finding
all alignments of a gene family at one locus. Lastly, the output is
presented either as custom sim4db alignments or as GFF3 gene features.
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This package is part of the Kmer suite.
Description-md5:
Homepage: http://kmer.sourceforge.net
Section: science
Priority: optional
Filename: pool/main/k/kmer/sim4db_0~20150903+r2013-8+b3_amd64.deb