MediaWiki API result

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                        "user": "Karsten",
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                                "*": "\n== What is XDS, and how to obtain it? ==\nXDS is a program package written for the \"reduction\" of 2-dimensional data images (\"frames\") obtained from crystals irradiated with monochromatic X-rays. The package mainly consists of the programs [[XDS]] (which processes a single dataset), [[XSCALE]] (for scaling of several datasets) , and [[XDSCONV]] (for conversion of a reflection output file to other formats). Additional auxiliary programs are [[cellparm]], [[2cbf]] and [[merge2cbf]]. [[XDS-viewer]], for visualizing frames, can be downloaded separately (see [[Installation]]).\n\nThe author of the program package is Wolfgang Kabsch (Wolfgang dot Kabsch at mpimf-heidelberg dot mpg dot de); since 2007 I contribute code, handle and fix bugs and teach XDS usage. \n\nThe program is free for academic use, and can be downloaded from https://xds.mr.mpg.de/html_doc/XDS.html (if the download from that site fails, there's a copy at https://{{SERVERNAME}}/xds ).\n\nDocumentation is at http://xds.mr.mpg.de/html_doc/XDS.html ; possibly old documentation is [https://{{SERVERNAME}}/pub/xds/XDS_html_doc/index.html here].\n\nAn open-source viewer [[XDS-Viewer]] is [http://xds-viewer.sourceforge.net available] for visualization of the control images written by [[XDS]] (and [[XSCALE]]). E.g. [[Adxv]] can also visualize XDS output files.\n\nThere is another program available, which serves to produce additional output of tables and plots. This is not part of the official XDS package; its name is [[XDSSTAT]] (written and distributed by Kay Diederichs). Yet another program that produces frame-wise (for XDS_ASCII.HKL) or dataset-wise (for XSCALE.HKL) CC<sub>1/2</sub> statistics is [[XDSCC12]]. \n\n[[XDSGUI]], a graphical user interface, serves to help using XDS.\n\n== Links to XDS papers by Wolfgang Kabsch ==\n\n# [http://dx.doi.org/10.1107/S0021889887009737 ''J. Appl. Cryst.'' (1988). 21, 67-72. Automatic indexing of rotation diffraction patterns.] explaining the diffraction geometry as used in XDS, the local-indexing method used in IDXREF and the refinement of diffraction geometry parameters. \n# [http://dx.doi.org/10.1107/S0021889888007903 ''J. Appl. Cryst.'' (1988). 21, 916-924. Evaluation of single-crystal X-ray diffraction data from a position-sensitive detector]. This is ''the'' reference for the integration and scaling algorithms employed in the INTEGRATE and CORRECT steps.\n# [http://dx.doi.org/10.1107/S0021889893005588 ''J. Appl. Cryst.'' (1993). 26, 795-800. Automatic processing of rotation diffraction data from crystals of initially unknown symmetry and cell constants]. This builds upon publication 1. and gives further important details of the IDXREF step, in particular about space-group determination.\n# [http://it.iucr.org/Fa/contents/ Chapters 11.3 and 25.2.9 in ''International Tables for Crystallography Volume F: Crystallography of Biological Macromolecules'']\n# [http://dx.doi.org/10.1107/S0907444909047374 ''Acta Cryst.'' (2010). '''D66''', 133-144. Integration, scaling, space-group assignment and post-refinement.] the definitive reference. Open access.\n# [http://dx.doi.org/10.1107/S0907444909047337 ''Acta Cryst.'' (2010). '''D66''', 125-132. XDS] the definitive reference. Open access.\n\n== Purpose of the Wiki ==\nThe purpose of this Wiki is to provide an accurate resource for XDS users, and to provide explanations and hints for the successful use of XDS. I (Kay Diederichs) try to keep the Wiki up-to-date with XDS versions and insights. I collect [[Tips and Tricks]] for XDS usage, explanations of its output, and recommendations for the parameters in [[XDS.INP]] (if it appears useful to deviate from their defaults).\n\nTo see what's there already, go to [[Special:Allpages|List of all pages]]. A good starting point is the article about [[XDS.INP]] where the keywords and parameters for running XDS are described. There is also a [[wishlist]], and [[Known Bugs]], and [[Quality Control]] (under construction).\n\n== Contributing to the Wiki ==\n* The MediaWiki software used here works in the same way as the well-known Wikipedia. This means that anyone can read articles, but for editing existing pages, and creating new ones (this happens automatically when you click on a [[red link]]), we need to a create an account for you - send us a personal email (kay.diederichs@uni-konstanz.de, or karsten.schaefer@uni-konstanz.de).\n* Short introduction to [[creating an article]]\n\n== Wiki contents ==\n\n* [[Special:Allpages|List of all pages]] - to see which pages exist already ...\n\n* [[Topics]] as an attempt to provide a hierarchy of pages\n\n* new articles: [[SSX]], [[Xscale_isocluster]], [[LIB]]\n\n== News ==\nNew version of XDSGUI May 2023 - see [[Installation]]\n\n[https://www.youtube.com/watch?v=3WU9NrILECo XDS and XDSGUI. SBGrid Webinar by Kay Diederichs, May 2020] [https://strucbio.biologie.uni-konstanz.de/pub/Crystallographic_data_processing_with_XDS_using_XDSGUI.pdf slides of the talk]\n\n[[xdscc12]]\n\n[[xscale_isocluster]]\n\nOur [https://doi.org/10.1107/S2059798320006348 July 2020 paper] about selection and scaling in multi-data-set crystallography\n\n== See also ==\n[https://{{SERVERNAME}}/pub/MWhitley_CSHL-2018_XDS-Tutorial.pdf Matthew J. Whitley's excellent tutorial] about XDS processing with [[XDSGUI]], from the 2018 Cold Spring Harbor X-Ray Methods in Structural Biology Course.\n\n[https://{{SERVERNAME}}/pub/XDS_Yamashita_ACA2014.pdf Keitaro Yamashita's talk] about XDS processing given at ACA2014.\n\n[http://strucbio.biologie.uni-konstanz.de/~dikay/XDS_Diederichs_ACA2011.pdf XDS talk] given at ACA2011.\n\n[https://www.researchgate.net/publication/236032099_Practical_use_of_XDS_%28for_data_reduction%29._Presented_in_April_4th_2013_Dept._of_Biochemical_Sciences_Sapienza_University_of_Rome?ev=prf_pub Practical use of XDS (for data reduction) - by Fulvio Saccoccia], Presented in April, 4th 2013; Dept. of Biochemical Sciences and Istituto Pasteur-Fondazione Cenci Bolognetti - Sapienza University of Rome.\n\n[[XDSGUI]], a graphical user interface for data processing with XDS developed by Wolfgang Brehm and Kay Diederichs\n\n[http://www.helmholtz-berlin.de/xdsapp XDSAPP3], a graphical user interface for automatic data processing with XDS\n\n[[Installation]]"
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