Knuspr
Main Reference
Geometric properties of nucleic acids with
potential for autobuilding Acta
Crystallogr. 2010, A67, 1-8
BibTeX file doi:10.1107/S0108767310039140
License Information
The source of Knuspr
and its GUI are licensed under a Creative Commons Attribution
3.0 Unported License. By agreeing to the license, you agree that
"appropriate credit" means citing the above publication.
Binaries and Source Code
Knuspr ("Kinderleichtes Nukleinsäure SuchPRogramm") was my main research topic between 2004 and about 2011. The program finds the positions of phosphates and bases in electron density maps with a fairly high degree of reliability. knuspr is particularly useful in combination with RCrane. In order to make both programs work together you should install the GUI knuspr-gui.
The user name to access these files is knuspr, the password is "oshaeM6IeM". I hope this prevents robots from downloading the source without agreement to my license.
OS | Platform | File | md5 message digest |
---|---|---|---|
source | n/a | knuspr-2016-07-13.zip | 58914b75cabcdd7e1b2e97d2ed7fb9f6 |
Linux | 64bit | knuspr64bit_linux-2013-08-12 | 86e80eda68be409fd23483d838b32373 |
Linux | 32bit | knuspr32bit_linux-2013-08-12 | a9c6d8ae4815c4119eaa826cefe54e5c |
Linux | 64bit | knuspr64bit_linux-2016-07-13 (dynamically linked) | 89786fc3c5d54d685e5b6c9fac70bd91 |
Beware that the Linux binary of the latest version 2016-07-13 is dynamically linked: you will need the runtime libraries from ccp4c, clipper, gsl, gomp, and fftw in addition to more standard libraries. It has become cumbersome to link statically against clipper and ccp4c, and these to libraries have become available in the standard repositories in many distributions, hence there is little need for a statically linked version.
If you do need the statically linked version, it is most likely safe to use the 2013-08-12 version: the single bug fix in 2016-07-13 has been reported to me a only once!
knuspr GUI: Combining knuspr with RCrane
Moritz Wette has developped a graphical user interface that allows using knuspr from within coot. It also acts as an interface to RCrane, i.e., to GUI passes the output from knuspr on to RCrane. The package you need to download for using knuspr-gui contains a README.txt with installation instructions. Note that you need access to your coot installation.
This code was successfully tested with coot 0.8.2-pre (revision 5502) and python 2.7.8.
OS | Platform | File | md5 message digest |
---|---|---|---|
Mac OSX and Linux | n/a | knuspr-gui_2015-02-20.tar.gz | 76dc452d1c850cb911f38b61f0de2942 |
Moritz Wette's work was supported by the DFG grant GR 4216/1-1.
Tim GrueneLast modified: Mar 25, 2020 22:41