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trj_cavity finds protein cavities throughout Molecular Dynamics (MD) simulation trajectories. The program works with files in PDB format, but it also can read/generate GROMACS compatible formats such as XTC.
The same project can be compiled as a GROMACS tool or as a standalone version. Installation instructions are provided in the INSTALL file of the project and in https://sourceforge.net/p/trjcavity/wiki/Home/#ffad
If you need support using this tool (or report bugs), please post it...
Visual studio C and C++ projects to build and use mumps sparse solver
Project consist of a WinForm to modify Mumps source files in order to compile and use them under the 64-bit or 32-bit windows environment and to create necessary VS 2010 projects/solution to compile the source code.
On the code tab you can find the sample Mumps solver solution with 6 projects. Two projects are a mumps wrapper library - dynamic and static. And other four projects are testing projects - two are C++ (linking static or dynamic wrapper library) and two are C (again linking static or dynamic library).
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...Output allows for decisions based on CDF probabilities, top R values, or comparison of R values with randomized data. Comparisons are the believability metric of Stekel et al, or observed vs expected R at a given mean expression. Randomization is through Poisson or negative binomial distributions, or column shuffling.
representation by relations vs data storage. pile unifies the contradicted qualities of tables/trees (databases) and complex networks, order and flexibility. dynamical data generation on call. fast. natively compressing similarities. search across scopes.
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Plot 2D (plotting X vs Y) scatter plots directly to a compressed image file. Platform independent standalone package. Plot up to 12 series. ASCII options file. Console/Terminal and win32 GUI. Code is ANSI C with C++ encapsulation. Try it on the website.
Develop hardware for universal chip programmer, buildable cheaply by hobbyists - 40-pin programmer to cost under Ł100 (vs. Ł300 for commercial version). Use GunFire for software support.