AliView is an alignment viewer and editor of DNA / aminoacid sequences. It aims to be one of the fastest and most intuitive to use.
The general idea when designing this program has always been usability and speed, all new functions are optimized so they do not affect the general performance and capability to work swiftly with large alignments.
A need to easily sort, view, remove, edit and merge sequences from large transcriptome datasets initiated the work with the program.
Key Features
- Supports Fasta, Nexus, Phylip, Clustal or MSF-format (unlimited file sizes).
edit (manually). - Align, add and align automatically (with MUSCLE or MAFFT or any other aligner of your choice).
- Find degenerate primers in conserved regions in an alignment of mixed species.
- On the fly translation of nucleotides to amino acids.
- Various visual cues to highlight consensus characters or characters deviating from the consensus.
- Simple copy/paste/drop/remove of sequences/files.
- Very simple to use “external interface” that lets you invoke your other favorite programs (you could for example automatically have the alignment sent to FastTree and then automatically opened in FigTree).
- Cross-platform support – runs under Linux, macOS, and Windows.
Website: www.ormbunkar.se/aliview
Support: GitHub Code Repository
Developer: Department of Systematic Biology (Uppsala University)
License: GNU General Public License v3.0
AliView is written in Java. Learn Java with our recommended free books and free tutorials.
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