Feb 28 2017
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SPIDER
(System for Processing Image Data from Electron microscopy and Related fields) a large image processing suite for electron microscopy.
Updated versions:
24.01 | Linux 64
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Feb 27 2017
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XDrawChem
a two-dimensional molecule drawing program for Unix operating systems that can read and write MDL Molfiles, and read ChemDraw text and binary files, to allow sharing between XDrawChem and other chemistry applications, and it can create images in popular formats like PNG and EPS.
Updated versions:
1.10.2 | Linux 64
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Feb 27 2017
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XDP
used for processing electron diffraction data. Previously available only on DEC Alpha.
Updated versions:
xdp | Linux 64
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Feb 27 2017
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TimeScapes
a Python-based program package that can be used to efficiently detect and characterize significant conformational changes in simulated biomolecular systems.
Updated versions:
1.4 | OS X INTEL
1.4 | Linux 64
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Feb 27 2017
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ScĂ…tter
a JAVA-based application for basic analysis of SAXS datasets. Scatter is developed by Robert Rambo at the Diamond Light Source (Didcot, UK). The program was previously developed at the SIBYLS beamline (12.3.1) of the Advanced Light Source, Berkeley, CA.
Updated versions:
3.0i | OS X INTEL
3.0i | Linux 64
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Feb 27 2017
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RStudio
an integrated development environment (IDE) for R that includes a console, syntax-highlighting editor that supports direct code execution, as well as tools for plotting, history, debugging and workspace management.
Updated versions:
1.0.44 | OS X INTEL
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Feb 27 2017
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Python
a general-purpose, interpreted, object oriented, high-level dynamic programming language that emphasizes code readability. Its syntax allows programmers to express concepts in fewer lines of code than in C++ or Java, thus allowing programmers to work more quickly and integrate their systems more effectively.
Updated versions:
2.7.12 | Linux 64
2.7.12-framework-ucs2 | OS X INTEL
2.7.12-framework-ucs4 | OS X INTEL
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Feb 27 2017
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Priism/IVE
the graphical interface to a collection of applications for the analysis and visualization of multidimensional data, with a focus on data from 3D optical microscopy and electron tomography. IVE (Image Visualization environment) is the core set of software libraries that are the foundation for the tools in Priism.
Updated versions:
4.6.1 | OS X INTEL
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Feb 27 2017
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NAMD
a parallel molecular dynamics code designed for high-performance simulation of large biomolecular systems.
Updated versions:
2.12 | Linux 64
2.12-cuda | Linux 64
2.12-multicore | Linux 64
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Feb 27 2017
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Dynamo
a software environment for subtomogram averaging of cryo-EM data.
Updated versions:
1.1.217 | Linux 64
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Feb 27 2017
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DSSR
(Dissecting the Spatial Structure of RNA) a software tool for dissecting the spatial structure of RNA.
Updated versions:
1.6.5 | Linux 64
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Feb 22 2017
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Qt
a cross-platform application framework that is used for developing application software that can be run on various software and hardware platforms with little or no change in the underlying codebase, while still being a native application with native capabilities and speed.
Updated versions:
3.3.8 | OS X INTEL
4.5.1 | OS X INTEL
4.7.2 | OS X INTEL
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Feb 22 2017
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Mono
an open source implementation of Microsoft's .NET Framework based on the ECMA standards for C# and the Common Language Runtime.
Updated versions:
3.0.0 | OS X INTEL
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Feb 22 2017
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OpenJDK
(Open Java Development Kit) is a free and open source implementation of the Java Platform, Standard Edition (Java SE).
Updated versions:
jdk1.5.0_22 | Linux 64
jdk1.6.0_27 | Linux 64
jdk1.7.0_51 | Linux 64
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Feb 22 2017
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Qt
a cross-platform application framework that is used for developing application software that can be run on various software and hardware platforms with little or no change in the underlying codebase, while still being a native application with native capabilities and speed.
Updated versions:
3.3.8 | Linux 64
4.8.6 | Linux 64
latest-3.x | Linux 64
latest-4.x | Linux 64
4.7.2-small | Linux 64
4.7.2 | Linux 64
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Feb 22 2017
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Mono
an open source implementation of Microsoft's .NET Framework based on the ECMA standards for C# and the Common Language Runtime.
Updated versions:
3.0.0 | Linux 64
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Feb 22 2017
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vtk
(Visualization Tool Kit)f a C++ class library and several interpreted interface layers including Tcl/Tk, Java, and Python. VTK supports a wide variety of visualization algorithms including scalar, vector, tensor, texture, and volumetric methods, as well as advanced modeling techniques such as implicit modeling, polygon reduction, mesh smoothing, cutting, contouring, and Delaunay triangulation.
Updated versions:
5.6.1 | Linux 64
5.10.1 | Linux 64
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Feb 22 2017
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3DNA
a versatile, integrated software system for the analysis, rebuilding, and visualization of 3-dimensional nucleic acid structures.
Updated versions:
2.3-20170208 | Linux 64
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Feb 22 2017
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CUDA
redistributable software libraries to support CUDA applications for Linux.
Updated versions:
7.5 | Linux 64
8.0 | Linux 64
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Feb 17 2017
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EMAN2
a scientific image processing suite with a particular focus on single particle reconstruction from cryoEM images. EMAN2 is a complete refactoring of the original EMAN1 library and contains the SPARX applications.
Updated versions:
2.07 | Linux 64
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Feb 09 2017
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BLAST+
a suite of BLAST (Basic Local Alignment Search Tool) tools that utilizes the NCBI C++ Toolkit with a number of performance and feature improvements over the legacy BLAST applications.
Updated versions:
2.6.0 | Linux 64
2.6.0 | OS X INTEL
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Feb 09 2017
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XRayView
uses interactive computer graphics to introduce basic concepts of X-ray diffraction by crystals, including the reciprocal lattice, the Ewald sphere construction, Laue cones, the wavelength dependence of the reciprocal lattice, primitive and centered lattices and systematic extinctions, rotation photography, Laue photography, space group determination and Laue group symmetry, and the alignment of crystals by examination of reciprocal space.
Updated versions:
5.0 | Linux 64
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Feb 06 2017
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EPMR
a program that finds crystallographic molecular replacement solutions using an evolutionary search algorithm. The program directly optimizes three rotational and three positional parameters for the search model with respect to the correlation coefficient between Fo and Fc.
Updated versions:
16.07.1 | Linux 64
16.07.1 | OS X INTEL
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