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AliView

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AliView
AliView ico 128x128.png
Stable release
1.18 / 9 March 2016 (2016-03-09)
Written inJava
Engine
    Operating systemCross-platform
    Available inEnglish
    LicenseGPL
    Websiteormbunkar.se/aliview

    Amazon.com Logo.png Search AliView on Amazon.

    AliView is an open-source nucleotide/aminoacid alignment viewer and editor.

    It is cross platform and working very well on Mac OS X, Windows and Linux.

    The general idea with the design of the program was speed (handling large alignments) and user-friendliness.[1]

    The program is developed at subdepartment of Systematic Biology, Department of Organismal Biology, Uppsala University.

    AliView has been used to visualise sequences in high ranking research projects[2] in a wide varity of subject fields such as HIV epidemiology,[3] HIV-1 proviruses,[4] Protist research,[5] Fungal transcriptomics[6] and Plant systematics[7].


    See also[edit]

    • List of alignment visualization software
    • List of sequence alignment software

    References[edit]

    1. Larsson, Anders (2014-11-15). "AliView: a fast and lightweight alignment viewer and editor for large datasets". Bioinformatics. 30 (22): 3276–3278. doi:10.1093/bioinformatics/btu531. ISSN 1367-4803. PMID 25095880.
    2. "AliView citations on Google Scholar". Google Scholar.
    3. Poon, Art F. Y. (2015-09-01). "Phylodynamic Inference with Kernel ABC and Its Application to HIV Epidemiology". Molecular Biology and Evolution. 32 (9): 2483–2495. doi:10.1093/molbev/msv123. ISSN 0737-4038. PMID 26006189.
    4. Imamichi, Hiromi; Dewar, Robin L.; Adelsberger, Joseph W.; Rehm, Catherine A.; O’Doherty, Una; Paxinos, Ellen E.; Fauci, Anthony S.; Lane, H. Clifford (2016-08-02). "Defective HIV-1 proviruses produce novel protein-coding RNA species in HIV-infected patients on combination antiretroviral therapy". Proceedings of the National Academy of Sciences. 113 (31): 8783–8788. doi:10.1073/pnas.1609057113. ISSN 0027-8424. PMID 27432972.
    5. Harding, Tommy; Brown, Matthew W.; Simpson, Alastair G. B.; Roger, Andrew J. (2016-07-01). "Osmoadaptative Strategy and Its Molecular Signature in Obligately Halophilic Heterotrophic Protists". Genome Biology and Evolution. 8 (7): 2241–2258. doi:10.1093/gbe/evw152. ISSN 1759-6653. PMID 27412608.
    6. Chibucos, Marcus C.; Soliman, Sameh; Gebremariam, Teclegiorgis; Lee, Hongkyu; Daugherty, Sean; Orvis, Joshua; Shetty, Amol C.; Crabtree, Jonathan; Hazen, Tracy H.; Etienne, Kizee A.; Kumari, Priti; O’Connor, Timothy D.; Rasko, David A.; Filler, Scott G.; Fraser, Claire M.; Lockhart, Shawn R.; Skory, Christopher D.; Ibrahim, Ashraf S.; Bruno, Vincent M. (2016-07-22). "An integrated genomic and transcriptomic survey of mucormycosis-causing fungi". Nature Communications. 7: 12218. doi:10.1038/ncomms12218. ISSN 2041-1723.
    7. Pryer, Kathleen M.; Huiet, Layne; Li, Fay-Wei; Rothfels, Carl J.; Schuettpelz, Eric (2016-03-01). "Maidenhair Ferns, Adiantum, are Indeed Monophyletic and Sister to Shoestring Ferns, Vittarioids (Pteridaceae)". Systematic Botany. 41 (1): 17–23. doi:10.1600/036364416X690660.

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