LIkelihood-based Fits of Folding Transitions
LIkelihood-based Fits of Folding Transitions (LIFFT) models thermodynamic relationships vs. temperature, ionic, or ligand condition from chemical mapping measurement data. Using a likelihood function, assumptions that are necessary for error estimation, normalization, or for the choice of residues to fit are spelled out explicitly and applied systematically.
To install LIFFT,
• Download the latest release here: https://github.com/DasLab/LIFFT/releases/
or if you want the latest code through git:
git clone https://github.com/ribokit/LIFFT.git
In MATLAB, go to “Set Path”. Then “Add with Subfolders” of the target path/to/LIFFT/.
In MATLAB, get a demo by typing:
lifft_demo( 'all' )
help lifft
Copyright © of LIFFT Source Code is described in LICENSE.md.
Lee, J., Kladwang, W., Lee, M., Cantu, D., Azizyan, M., Kim, H., Limpaecher, A., Yoon, S., Treuille, A., Das, R., and EteRNA Participants (2014)
RNA design rules from a massive open laboratory
Proceedings of the National Academy of Sciences U.S.A. 111 (6): 2122 - 2127. | Paper | Link
Kladwang, W., Chou, F.-C., and Das, R. (2012)
Automated RNA structure prediction uncovers a kink-turn linker in double glycine riboswitches
Journal of the American Chemical Society 134 (3): 1404 - 1407 | Paper | Link
Frederiksen, J.K., Li, N.S., Das, R., Herschlag, D., and Piccirilli, J.A. (2012)
Metal-ion rescue revisited: Biochemical detection of site-bound metal ions important for RNA folding
RNA 18 (6): 1123 - 1141. | Paper | Link
Developed by Das lab, Leland Stanford Junior University.
README updated by Rhiju Das, March 2018.
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