arvestad/alv: v1.3.0 — the official JOSS release
View your DNA or protein multiple-sequence alignments right at your command line. No need to launch a GUI!
alv requires Python v3.4 or later. Earlier versions may also work, but this has not been tested.
- Command-line based, no GUI, so easy to script viewing of many (typically small) MSAs.
- Reads alignments in FASTA, Clustal, PHYLIP, and Stockholm formats.
- Output is formatted to suit your terminal. You can also set the alignment width with option
- Can color alignments of coding DNA by codon's translations to amino acids.
- Guesses sequence type (DNA/RNA/AA/coding) by default. You can override with option
- Order sequence explicitly, alphabetically, or by sequence similarity.
- Restrict coloring to where you don't have indels or where there is a lot of conservation.
This is the release that corresponds to what is published in JOSS.