- Mol*
- Intro Guide (v); Exploring Overall Shape and Local Environments (v); Documentation (w); Cheat Sheet (d)
- UCSF Chimera
- Basics (v); Menus (v); Selecting atoms, residues and chains (v); Structure analysis (v); Structure Comparisons (v); Cheat Sheet (d)
- iCn3D
- Tutorials - Part 1 (windows, menus, representations) (v) and Part 2 (interactions, alignment, embedding) (v)
- Jmol
- Intro to Jmol scripting (w); Jmol/JSmol documentation (w) ; Jmol Mouse Commands (w); Cheat Sheet (d)
- Pymol
d - document; v - video; w - web-page; p - paper; r - link to resource