How to Install and Uninstall pinfish-examples Package on Kali Linux

Last updated: May 14,2024

1. Install "pinfish-examples" package

Please follow the guidelines below to install pinfish-examples on Kali Linux


    
        
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                sudo apt update
            
                    
    
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                sudo apt install
            
                        
                pinfish-examples
            
                    
    
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2. Uninstall "pinfish-examples" package

This tutorial shows how to uninstall pinfish-examples on Kali Linux:


    
        
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                sudo apt remove
            
                        
                pinfish-examples
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the pinfish-examples package on Kali Linux

Package: pinfish-examples
Source: pinfish
Version: 0.1.0+ds-4
Installed-Size: 175903
Maintainer: Debian Med Packaging Team
Architecture: all
Size: 179449428
SHA256: aa5ffc81a7738cd4d3eaae333136e185b127228566971b2426e273896e4131c5
SHA1: fd3831059df7363e112ef50d2fe48deb8cdde791
MD5sum: 57648911b64eef6b984cac4898f8528c
Description: Examples and test data for pinfish
The toolchain is composed of the following tools:
1. spliced_bam2gff - a tool for converting sorted BAM
files containing spliced alignments
into GFF2 format. Each read will be represented as a distinct
transcript. This tool comes handy when visualizing spliced
reads at particular loci and to provide input to the rest
of the toolchain.
.
2. cluster_gff - this tool takes a sorted GFF2 file as
input and clusters together reads having similar
exon/intron structure and creates a rough consensus
of the clusters by taking the median of exon
boundaries from all transcripts in the cluster.
.
3. polish_clusters - this tool takes the cluster
definitions generated by cluster_gff and for each
cluster creates an error corrected read by mapping
all reads on the read with the median length
and polishing it using racon. The polished reads
can be mapped to the genome using minimap2 or GMAP.
.
4. collapse_partials - this tool takes GFFs generated
by either cluster_gff or polish_clusters and filters
out transcripts which are likely to be based on RNA
degradation products from the 5' end. The tool clusters
the input transcripts into "loci" by the 3' ends and
discards transcripts which have a compatible transcripts
in the loci with more exons.
.
This package contains a test data set as well as sample scripts
running some test suite provided by Debian also as autopkgtest.
Description-md5:
Multi-Arch: foreign
Homepage: https://github.com/nanoporetech/pinfish
Section: science
Priority: optional
Filename: pool/main/p/pinfish/pinfish-examples_0.1.0+ds-4_all.deb