(Download v262) for ruby-gsl 1.9 and 1.8
(Download v262p1) for ruby-gsl 1.10 and later
An implementation of helical image processing based on object-oriented scripting language Ruby.
Ruby-Helix Documentation
Very detailed documentation including installation, commands, and programming interface.
User’s Guide (1.7MB pdf)
written by Andrew Bodey when he studied mitotic kinesin motor at Carolyn Moores’ labThis is a practical guide to use Ruby-Helix for helical reconstruction.
Installation Guide
Special thanks to:
Masahiro Tanaka, who made NArray Ruby-Helix heavily depends on this library.
When you use Ruby-Helix or Unbend, please refer to the following publications:
References
Metlagel, Z., Y. S. Kikkawa, and M. Kikkawa
Ruby-Helix : An implementation of helical image processing based on object-oriented scripting language
J. Struc. Biol. 157:95-105, 2007
Kikkawa, M.
A new theory and algorithm for reconstructing helical structures with a seam.
Journal of Molecular Biology, 343:943-955, 2004
List of publications in which Ruby-Helix was used:
Kikkawa M, Hirokawa N.
High-resolution cryo-EM maps show the nucleotide binding pocket of KIF1A in open and closed conformations.
EMBO J. 2006 Sep 20;25(18):4187-94.
Mizuno N, Narita A, Kon T, Sutoh K, Kikkawa M.
Three-dimensional structure of cytoplasmic dynein bound to microtubules.
Proc Natl Acad Sci U S A. 2007 Dec 26;104(52):20832-7. Epub 2007 Dec 19.
Oda T, Hirokawa N, Kikkawa M.
Three-dimensional structures of the flagellar dynein-microtubule complex by cryoelectron microscopy.
J Cell Biol. 2007 Apr 23;177(2):243-52. Epub 2007 Apr 16.
Bodey AJ, Kikkawa M, Moores CA.
9-Angström structure of a microtubule-bound mitotic motor.
J Mol Biol. 2009 May 1;388(2):218-24
Peters C, Brejc K, Belmont L, Bodey AJ, Lee Y, Yu M, Guo J, Sakowicz R, Hartman J, Moores CA.
Insight into the molecular mechanism of the multitasking kinesin-8 motor.
EMBO J. 2010 Oct 20;29(20):3437-47