A terminal-based Stockholm alignment editor for RNA, DNA, and protein sequences.

• Stockholm format with full annotation support (#=GF, #=GS, #=GC, #=GR)
• Vim-style modal editing (normal, insert, visual, command modes)
• RNA/DNA/Protein auto-detection with appropriate coloring
• Secondary structure visualization and paired-base navigation
• Sequence clustering with dendrogram display (UPGMA)
• Collapse identical sequences to reduce clutter

cargo install aform-rs

Or build from source:

cargo build --release

aform alignment.stk

Press ? for help, :q to quit.

See the full documentation for keybindings, commands, and color schemes.

MIT

Inspired by ralee by Sam Griffiths-Jones.