How to Install and Uninstall staden-common Package on Ubuntu 20.10 (Groovy Gorilla)

Last updated: May 17,2024

1. Install "staden-common" package

This is a short guide on how to install staden-common on Ubuntu 20.10 (Groovy Gorilla)


    
        
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                sudo apt update
            
                    
    
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            $
        

        
            
                sudo apt install
            
                        
                staden-common
            
                    
    
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2. Uninstall "staden-common" package

Please follow the step by step instructions below to uninstall staden-common on Ubuntu 20.10 (Groovy Gorilla):


    
        
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                sudo apt remove
            
                        
                staden-common
            
                    
    
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            $
        

        
            
                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the staden-common package on Ubuntu 20.10 (Groovy Gorilla)

Package: staden-common
Architecture: all
Version: 2.0.0+b11-4build2
Priority: optional
Section: universe/science
Source: staden
Origin: Ubuntu
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Bugs: https://bugs.launchpad.net/ubuntu/+filebug
Installed-Size: 5904
Depends: tk8.6 | wish
Recommends: ksh | zsh
Filename: pool/universe/s/staden/staden-common_2.0.0+b11-4build2_all.deb
Size: 1772908
MD5sum: b547572557979b0ccbbab61a628f4990
SHA1: 0ae9fc2d7d254c251aff28f6b9bbb9147d0e7246
SHA256: 46076aec4ac07eb2c9421fd6fee6df07b20514c2f965d524420dc0cbe0942b2a
SHA512: 6449d1bc9a72db66ff0b739ebec4757571a7609da10e1e6994065418fea73debf638de30d4fe372752ab965f8c008277a5d16888372e26b5a9ff1c92d0fcb918
Homepage: https://sourceforge.net/projects/staden/
Description-en: Architecture independent files for Staden
Staden is a fully developed set of DNA sequence assembly (Gap4 and
Gap5), editing and analysis tools (Spin).
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Gap4 performs sequence assembly, contig ordering based on read pair
data, contig joining based on sequence comparisons, assembly checking,
repeat searching, experiment suggestion, read pair analysis and contig
editing. It has graphical views of contigs, templates, readings and
traces which all scroll in register. Contig editor searches and
experiment suggestion routines use confidence values to calculate the
confidence of the consensus sequence and hence identify only places
requiring visual trace inspection or extra data. The result is
extremely rapid finishing and a consensus of known accuracy.
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Pregap4 provides a graphical user interface to set up the processing
required to prepare trace data for assembly or analysis, and automates
these processes.
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Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and
ZTR trace files.
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Prefinish analyses partially completed sequence assemblies and suggests
the most efficient set of experiments to help finish the project.
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Tracediff and hetscan automatically locate mutations by comparing trace
data against reference traces. They annotate the mutations found ready
for viewing in gap4.
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Spin analyses nucleotide sequences to find genes, restriction sites,
motifs, etc. It can perform translations, find open reading frames,
count codons, etc. Many results are presented graphically and a sliding
sequence window is linked to the graphics cursor. Spin also compares
pairs of sequences in many ways. It has very rapid dot matrix analysis,
global and local alignment algorithms, plus a sliding sequence window
linked to the graphical plots. It can compare nucleic acid against
nucleic acid, protein against protein, and protein against nucleic
acid.
.
This package contains the architecture independent data files and
scripts that come with the Staden package.
Description-md5: 368671f3c5301070f6dd5064e174b05f