mirror of
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ddf8e03e91
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org> |
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aliview.desktop | ||
aliview.info | ||
aliview.SlackBuild | ||
doinst.sh | ||
README | ||
References | ||
slack-desc |
AliView is yet another alignment viewer and editor, but this is probably one of the fastest and most intuitive to use. Features: - fast and light-weight - simple navigation, mouse-wheel zoom out and zoom in - highlight consensus characters or characters deviating - edit sequences/alignment (manually) - align, add and align automatically with any aligner of your choice - align new sequences to existing or realign all - realign a selected block - realign nucleotides as translated amino-acids - delete vertical gaps - undo/redo - find degenerate primers in conserved regions in an alignment - open and save in FASTA, NEXUS, PHYLIP, CLUSTAL or MSF format - print (current view) - export whole alignment as an image file (png-format) - copy selection (as fasta-sequences or just characters) - paste sequences (as sequences or filenames) - add more sequences from file - merge two sequences - and calculate consensus - translate (view) nucleotide sequences as amino-acid sequences - save translated alignment - read / preserve Codonpos, Charset and Excludes (Nexus-specification) - change Codonpos for selected regions (Nexus-specification) - drag-drop/remove of sequences/files - move sequences to top/bottom with key-stroke - a simple "external interface" that lets you invoke other programs - search function that finds patterns across gaps and follows IUPAC - search multiple sequence names at once (stored in clipboard) - reverse complement/reverse/complement sequences or whole alignment - different color schemes - sort sequences by name - sort sequences by residue in selected column Citation: Larsson, A. (2014). AliView: a fast and lightweight alignment viewer and editor for large data sets. Bioinformatics30(22): 3276-3278. http://dx.doi.org/10.1093/bioinformatics/btu531