How to Install and Uninstall staden Package on Ubuntu 16.04 LTS (Xenial Xerus)

Last updated: November 22,2024

1. Install "staden" package

This guide covers the steps necessary to install staden on Ubuntu 16.04 LTS (Xenial Xerus)


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

Please follow the step by step instructions below to uninstall staden on Ubuntu 16.04 LTS (Xenial Xerus):


    
        
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                sudo apt remove
            
                        
                staden
            
                    
    
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            $
        

        
            
                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the staden package on Ubuntu 16.04 LTS (Xenial Xerus)

Package: staden
Priority: optional
Section: universe/science
Installed-Size: 4189
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Architecture: amd64
Version: 2.0.0+b10-4ubuntu1
Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.0), liblzma5 (>= 5.1.1alpha+20120614), libpng12-0 (>= 1.2.13-4), libstaden-read11, libstdc++6 (>= 4.1.1), libtcl8.6 (>= 8.6.0), libtk8.6 (>= 8.6.0), libx11-6, zlib1g (>= 1:1.2.0.2), staden-common (= 2.0.0+b10-4ubuntu1), staden-io-lib-utils, tklib
Filename: pool/universe/s/staden/staden_2.0.0+b10-4ubuntu1_amd64.deb
Size: 1376184
MD5sum: d748892594b48054abde60c28dd152a9
SHA1: 417b675513d35890c8d50668c2241543a83b8d24
SHA256: 6f0ace7f79832e8db54884a46bbb1cff9979fcf035afa33fc117462e60683178
Description-en: DNA sequence assembly (Gap4/Gap5), editing and analysis tools
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.
Description-md5: ab389488bbaa41331fbf3a76064bea10
Homepage: https://staden.sf.net
Bugs: https://bugs.launchpad.net/ubuntu/+filebug
Origin: Ubuntu