How to Install and Uninstall tophat-recondition Package on Ubuntu 21.10 (Impish Indri)

Last updated: April 29,2024

1. Install "tophat-recondition" package

Please follow the steps below to install tophat-recondition on Ubuntu 21.10 (Impish Indri)


    
        
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                sudo apt update
            
                    
    
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                sudo apt install
            
                        
                tophat-recondition
            
                    
    
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2. Uninstall "tophat-recondition" package

Please follow the steps below to uninstall tophat-recondition on Ubuntu 21.10 (Impish Indri):


    
        
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                sudo apt remove
            
                        
                tophat-recondition
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the tophat-recondition package on Ubuntu 21.10 (Impish Indri)

Package: tophat-recondition
Architecture: all
Version: 1.4-3
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: 34
Depends: python3:any
Suggests: tophat2
Filename: pool/universe/t/tophat-recondition/tophat-recondition_1.4-3_all.deb
Size: 9648
MD5sum: d3cc1c2c4e286033e2bb05e1fb381bb5
SHA1: 5f65f87aba3e748d4b9a6faf42602369f3c622f1
SHA256: 7071d18bb7a5174b6f0041f1321dfc906fb65cdea19f0ba0c953ab2f7ba6aff8
SHA512: 4017c8adc64f510e7d5d902ed72a99043069c00828bd70ea9222af86bdc7f2456f7e78df46d362f57af985f84c3861932b3ddaaa28d76ea175ccb10c9de8b3dc
Homepage: https://github.com/cbrueffer/tophat-recondition
Description-en: post-processor for TopHat unmapped reads
tophat-recondition is a post-processor for TopHat unmapped reads
(contained in unmapped.bam), making them compatible with downstream
tools (e.g., the Picard suite, samtools, GATK) (TopHat issue #17). It
also works around bugs in TopHat:
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* the "mate is unmapped" SAM flag is not set on any reads in the
unmapped.bam file (TopHat issue #3)
* the mapped mate of an unmapped read can be absent from
accepted_hits.bam, creating a mismatch between the file and the unmapped
read's flags (TopHat issue #16)
Description-md5: b53fb81f926f4ff8c507481a84854191