Crystallographic software list

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DADIMODO Program for refining atomic models of multidomain proteins or complexes against small-angle X-ray scattering data. Interdomain distance and orientational restraints, such as those derived from NMR measurements, can be included in the optimization process. A software package including the Python code, documentation, examples and additional scripts is available from the authors on request.
DAJUST DAJUST is the generic name of a software package for powder diffraction formed by the core programs AJUST and SGAID. AJUST performs whole-pattern matching (cell-parameter refinement, profile fitting and intensity extraction), SGAID provides a list of the most probable space groups.
DASH User-friendly graphical-user-interface-driven computer program for solving crystal structures from X-ray powder diffraction data, optimized for molecular structures.
Data Analysis WorkbeNch (DAWN) The Data Analysis WorkbeNch (DAWN) was developed to address the challenge of providing a single visualization and analysis platform for data from any synchrotron experiment (including single-crystal and powder diffraction, tomography and spectroscopy), whilst also being sufficiently extensible for new specific use case analysis environments to be incorporated (e.g. ARPES, PEEM)
DATARED For the data reduction. Single crystal data reduction program. Corrects Lp, absorption and background intensities. Applicable to any system. To single crystal spheres. Converts the uncorrected structure factors into Lp, absorption and background corrected structure factors. See also dremablp. Exists as a GUI version named dataredwin.
Datasqueeze graphical interface for analyzing data from 2D x-ray detectors (image plate, CCD, wire). Facilities for pixel-by-pixel examination of the raw data, re-centering and calibrating the image, correcting for detector tilt relative to the incident beam, producing x-y plots of intensity versus Q (the momentum transfer), 2-theta, Qx, Qy, chi, as a Porod or Guinier plot, or along an arbitrary line across the image. Useful for the analysis of powder diffraction data, diffuse scattering from polymers or liquid crystals, or small-angle scattering from colloids, polymers, gels, or solutions. Not well suited for extracting intensities from many sharp Bragg peaks in a single-crystal diffraction type experiment
DataThief Program to reverse engineer scanned graphs to datapoints.
DATCOR Semi-empirical absorption correction (North algorithm). Input azimuthal data with psi angles. Many novel smoothing and data display routines. Program by JH Reibenspies at Texas A&M.
DATSEE companion program for the then
DBWatcher Sequence analysis batch software
DBWS Tools Graphical interface for DBWS, program for Rietveld refinements. Handles refinement jobs by compiling Input Control Files (ICF's) for DBWS, importing the CIF files from ICSD, running the program and showing the graphical results using the shareware program DMPlot, which plots diffraction patterns. For original programs see:
DDMP Difference distance matrix plot.
DEBVIN Rietveld refinment with generalized coordinates subjected to geometrical constraints.
DEF4 Simulation of plane wave topographs for dislocations
DEFW Simulation of section topographs for dislocations
DEJAVU To recognize arrangements of secondary structure elements.
DEMON Protein program suite. Name short for density modification.
DENFERT An algorithm for improvement of the ab initio restoration of biomacromolecular structure from small-angle X-ray scattering data, by consideration of an additional type of `dummy atom', representing the hydration layer is implemented in the program DENFERT.
DENZO DENZO is the integration component of a set of programs, HKL, authored by Wladek Minor and Zbyszek Otwinowski.
DetOx A program for determining anomalous scattering factors of mixed-oxidation-state species
DEXA Differential EXAFS is a new XAS technique dedicated to directly measuring the tiny atomic displacements that arise from such strain-inducing phenomena as magnetostriction, piezoelectricity and thermal expansion. These new experiments have presented the need for new analysis tools to extract and quantify the measured atomic strains, a need that has been addressed by the development of the DEXA code.
DIAMOND Visual crystal structure information system for molecular and solid state chemists as well as for surface and material scientists.
DICVOL91 part of the CCP14 suite. Indexing program
DIFABS PC version of the program by N.Walker with test files.
DIFFaX Calculates diffraction patterns from crystals that contain coherent planar defects, such as twins and stacking faults. Computes the average wave function from each layer occured in a faulted crystal and the incoherent intensity contribution
DIFFRACplus TOPAS Graphics based profile analysis program integrating various types of X-ray and neutron diffraction analyses by supporting all profile fit methods currently employed in powder diffractometry
Diffraction Pattern Calculator (DPC) a toolkit for a user-friendly approach to unit-cell lattice parameter identification of two-dimensional grazing-incidence wide-angle X-ray scattering data. The code for this program was written in MATLAB.
DiffractWD Program for basic powder pattern manipulations and visualization. It provides a user-friendly interface for comparison of spectra with each other and with simulated patterns based on single-crystal data.
DIMS direct-method program for solving incommensurate modulated structures and composite structures. The result of this program can be automatically interpreted by the program MIMS to obtain a 4D-structure model ( 4D-modeling in VEC).
DIRDIF Computer program system for crystal structure determination by Patterson methods and direct methods applied to difference structure factors. Dirdif 99.2 enhancements over Dirdif 96 is that it is more powerful and can handle significant deviations from the correct cell contents.
DISCUS Modelling, Materials Science, Scattering, Teaching. Description: Diffuse Scattering and Defect-structure simulation. Simulates crystal structures and to calculate the corresponding Fourier transform.
DLS-76 Simulation of crystal structures by geometric refinement.
DOCK Docking of molecules.
DOMAK Program to define domains in protein 3D structures.
DPDAK software for simple and fast on- and offline reduction and analysis of X-ray scattering data. It is an open-source software with a plug-in structure allowing tailored extensions.
DPLOT 2D Graphing Utility
DPS Complete package for data processing of crystallographic area detector data. Special features will be a transparent networking environment with a Web-based graphical user interface and parallized code for the most time consuming computational methods.
DRAGON DRAGON is a protein modelling tool using Distance Geometry. DRAGON attempts to predict the tertiary structure of a smallDRAGON communicates with you through a simple command-line interface which is used to specify parameter values and input filenames. soluble protein, given its sequence, the secondary structure and possibly a set of interresidue distance restraints.
DRAW The best and fastest way to get HPGL files into WORD 6 documents.
DRAWHCA HCA drawing directly through the Web from amino-acids sequences
DRAWxtl Display of crystal structures (ball-and-stick, polyhedra, thermal ellipsoids). Can import data in Shelx, Gsas, Cif and CSD fdat format. Produces output files in the Virtual Reality Modelling Language (VRML) or Persistence of Vision (POV-RAY) ray-tracing formats. The VRML format can be viewed locally or across the Internet, and the viewer can rotate and/or zoom the drawing in real time. Beginning with V2.4, the user can generate either VRML V1.0 or VRML97 (V2.0) format. In the latter form, it is possible to animate drawings as shown in the 'wrl' files included in the distribution.
DREMABLP Single crystal data reduction program. Corrects Lp, absorption and background. Applicable to any system. To single crystal spheres. Exists as a GUI version named dremablpwin.
DRXWin Graphical and Analytical Tools for XRD Powder Patterns. Let you work with X-Ray diffraction files coming from several diffractometers (Siemens, Philips, Rigaku, Stoe, Seifert, etc.), and Rietveld programs like FullProf and RIET7.
DS 4-circle Diffractometer Simulation
dSNAP to help users automatically classify and visualise the results of database searches using the Cambridge Structural Database.
DXAS Calibration DXAS Calibration provides a quantitative and automated solution to the problem of calibrating spectra from dispersive XAS beamlines.
dxtbx toolbox The dxtbx software package provides a consistent interface to both image data and experimental models, while supporting a completely generic user-extensible approach to reading the data files.