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

Last updated: April 29,2024

1. Install "soapsnp" package

In this section, we are going to explain the necessary steps to install soapsnp on Ubuntu 21.10 (Impish Indri)


    
        
            $
        

        
            
                sudo apt update
            
                    
    
    Copied


    
        
            $
        

        
            
                sudo apt install
            
                        
                soapsnp
            
                    
    
    Copied

2. Uninstall "soapsnp" package

Please follow the guidelines below to uninstall soapsnp on Ubuntu 21.10 (Impish Indri):


    
        
            $
        

        
            
                sudo apt remove
            
                        
                soapsnp
            
                    
    
    Copied


    
        
            $
        

        
            
                sudo apt autoclean && sudo apt autoremove
            
                    
    
    Copied

3. Information about the soapsnp package on Ubuntu 21.10 (Impish Indri)

Package: soapsnp
Architecture: amd64
Version: 1.03-4
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: 114
Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.0), libstdc++6 (>= 5.2)
Suggests: genomics.cn-soapsnp
Filename: pool/universe/s/soapsnp/soapsnp_1.03-4_amd64.deb
Size: 47868
MD5sum: f708fce24f5a5c10f55f565dc82b4998
SHA1: 63e1b1465f182bde2b38dc7666c9e2ccdb0d1f11
SHA256: 576c4fa1d4b3dfc6b235aea942b16315dfb13f5e1766e08cc0fd8b124d50795a
SHA512: eac6d76dd08fd9612278c47835256b8e20d71cd7f7d872b51480352a34607b39e638e9341bdd8cc57adbaec970bd0e3ebc5affb4d8f0ec97e88fe9480a0a8aed
Homepage: http://soap.genomics.org.cn/soapsnp.html
Description-en: resequencing utility that can assemble consensus sequence of genomes
For getting ideas on the cause of diseases or their response to
therapy, and for understanding either for a particular patient,
doctors around the globe are starting to look at the genes or the
whole genome and how that sequence is different from a healthy /
well responding individual.
.
SOAPsnp is a member of the SOAP (Short Oligonucleotide Analysis
Package). The program is a resequencing utility. It assembles the
consensus sequence for the genome of a newly sequenced individual based
on the alignment of the raw sequencing reads on a known reference. SNPs
can then be identified on the consensus sequence through the comparison
with the reference.
.
SOAPsnp uses a method based on Bayes' theorem (the reverse probability
model) to call consensus genotype by carefully considering the data
quality, alignment, and recurring experimental errors. All these kinds
of information was integrated into a single quality score for each base
in PHRED scale to measure the accuracy of consensus calling. Currently,
it supports the alignment format of SOAPaligner (soap2).
Description-md5: a9ca39a38ef5b5cbc92e0da83695f280