How to Install and Uninstall fasta3 Package on Ubuntu 20.10 (Groovy Gorilla)

Last updated: November 22,2024

1. Install "fasta3" package

This is a short guide on how to install fasta3 on Ubuntu 20.10 (Groovy Gorilla)


    
        
            $
        

        
            
                sudo apt update
            
                    
    
    Copied


    
        
            $
        

        
            
                sudo apt install
            
                        
                fasta3
            
                    
    
    Copied

2. Uninstall "fasta3" package

In this section, we are going to explain the necessary steps to uninstall fasta3 on Ubuntu 20.10 (Groovy Gorilla):


    
        
            $
        

        
            
                sudo apt remove
            
                        
                fasta3
            
                    
    
    Copied


    
        
            $
        

        
            
                sudo apt autoclean && sudo apt autoremove
            
                    
    
    Copied

3. Information about the fasta3 package on Ubuntu 20.10 (Groovy Gorilla)

Package: fasta3
Architecture: amd64
Version: 36.3.8h.2020-02-11-3
Priority: optional
Section: multiverse/science
Origin: Ubuntu
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Bugs: https://bugs.launchpad.net/ubuntu/+filebug
Installed-Size: 6115
Depends: libc6 (>= 2.29)
Suggests: perl:any, libdbi-perl, libwww-perl, libjson-perl, libhtml-tableextract-perl, libxml-twig-perl, liburi-encode-perl, libdbd-mysql-perl, python3-mysqldb, ncbi-blast+, bedtools
Filename: pool/multiverse/f/fasta3/fasta3_36.3.8h.2020-02-11-3_amd64.deb
Size: 763688
MD5sum: b9f0983ec7d74661cc2ddf35e1e9968e
SHA1: b6107ec23dae95291f9319950352375708f8d740
SHA256: 4e7a74752f975b2cfbcea04708cb05a0a57e50808b4bda7ed28751ba906759b2
SHA512: e2aa6d8c6fcc9de0e299505ca2f5b0760aa7e8fe381bbc1c104254b426d35e6a53022d5987071343255d3dc682adb74f6ba0052b237adf1b753519fbb5a2b097
Homepage: https://fasta.bioch.virginia.edu
Description-en: tools for searching collections of biological sequences
The FASTA programs find regions of local or global similarity between
Protein or DNA sequences, either by searching Protein or DNA databases,
or by identifying local duplications within a sequence. Other
programs provide information on the statistical significance of an
alignment. Like BLAST, FASTA can be used to infer functional and
evolutionary relationships between sequences as well as help identify
members of gene families.
.
* Protein
- Protein-protein FASTA
- Protein-protein Smith-Waterman (ssearch)
- Global Protein-protein (Needleman-Wunsch) (ggsearch)
- Global/Local protein-protein (glsearch)
- Protein-protein with unordered peptides (fasts)
- Protein-protein with mixed peptide sequences (fastf)
.
* Nucleotide
- Nucleotide-Nucleotide (DNA/RNA fasta)
- Ordered Nucleotides vs Nucleotide (fastm)
- Un-ordered Nucleotides vs Nucleotide (fasts)
.
* Translated
- Translated DNA (with frameshifts, e.g. ESTs)
vs Proteins (fastx/fasty)
- Protein vs Translated DNA (with frameshifts)
(tfastx/tfasty)
- Peptides vs Translated DNA (tfasts)
.
* Statistical Significance
- Protein vs Protein shuffle (prss)
- DNA vs DNA shuffle (prss)
- Translated DNA vs Protein shuffle (prfx)
.
* Local Duplications
- Local Protein alignments (lalign)
- Plot Protein alignment "dot-plot" (plalign)
- Local DNA alignments (lalign)
- Plot DNA alignment "dot-plot" (plalign)
.
This software is often used via a web service at the
EBI with readily indexed reference databases at
http://www.ebi.ac.uk/Tools/fasta/.
Description-md5: 0c5f0c74fdf5df990b61c52bee98824e