How to Install and Uninstall segemehl Package on Kali Linux

Last updated: November 26,2024

1. Install "segemehl" package

Please follow the step by step instructions below to install segemehl on Kali Linux


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

Learn how to uninstall segemehl on Kali Linux:


    
        
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                sudo apt remove
            
                        
                segemehl
            
                    
    
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                sudo apt autoclean && sudo apt autoremove
            
                    
    
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3. Information about the segemehl package on Kali Linux

Package: segemehl
Version: 0.3.4-5
Installed-Size: 1230
Maintainer: Debian Med Packaging Team
Architecture: amd64
Depends: libc6 (>= 2.29), libhts3 (>= 1.10), zlib1g (>= 1:1.2.2.4)
Size: 293512
SHA256: 396389e5b759cc1021a5dd61fa8764ebb51c8b9eb5608696cb178663a682cda4
SHA1: 8ad082c6dcf44c4b2c33c65f0970466e8a545fcd
MD5sum: 46d134fe81d06a862e848fbd1778f976
Description: short read mapping with gaps
Segemehl is a software to map short sequencer reads to reference
genomes. Segemehl implements a matching strategy based on enhanced
suffix arrays (ESA). Segemehl accepts fasta and fastq queries (gzip'ed
and bgzip'ed). In addition to the alignment of reads from standard DNA-
and RNA-seq protocols, it also allows the mapping of bisulfite converted
reads (Lister and Cokus) and implements a split read mapping strategy.
The output of segemehl is a SAM or BAM formatted alignment file. In the
case of split-read mapping, additional BED files are written to the
disc. These BED files may be summarized with the postprocessing tool
haarz. In the case of the alignment of bisulfite converted reads, raw
methylation rates may also be called with haarz.
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In brief, for each suffix of a read, segemehl aims to find the
best-scoring seed. Seeds might contain insertions, deletions, and
mismatches (differences). The number of differences allowed within a
single seed is user-controlled and is crucial for the runtime of the
program. Subsequently, seeds that undercut the user-defined E-value are
passed on to an exact semi-global alignment procedure. Finally, reads
with a minimum accuracy of percent are reported to the user.
Description-md5:
Homepage: http://www.bioinf.uni-leipzig.de/Software/segemehl/
Tag: uitoolkit::ncurses
Section: science
Priority: optional
Filename: pool/main/s/segemehl/segemehl_0.3.4-5_amd64.deb