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# Overview: The Current State
![image](https://user-images.githubusercontent.com/19792522/40171370-eb8ce746-597f-11e8-919f-36b6b1c80910.png)
- The ubuntu cuda 9.1 deb packages _appear_ to be incompl…
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In the supplemental to the publication there are numerous filters applied to the reads is it possible to dump these filtered reads to a bam?
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https://gist.github.com/idontgetoutmuch/597bcbe396a2598887542d35671fc72e
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Hi,
I have been trying to figure out how to use AMDForceGroupIntegrator in OpenMM. I have been getting the below error.
Do I need to combine AMDForceGroupIntegrator with Langevin Integrator to …
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I am working on the fusion and integration of polymer melts, where thermal diffusion closely couples with molecular dynamics. Coarse-grain (CG) molecular dynamics simulations are useful to get insight…
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I recently looked at [lib/include/include/calc_distances.h](https://github.com/MDAnalysis/mdanalysis/blob/develop/package/MDAnalysis/lib/include/calc_distances.h) and I wonder if we are treating tricl…
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Good day,
I would like to simulate the small positive charge on halides (Chlorine, Bromine and Iodine, but not Fluorine) on ligands for docking (Autodock) and molecular dynamics simulations (Gromac…
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Control algorithms like `RemoveRotation` and `RemoveTranslation` do not need to run at each simulation step. they could have separated frequency field to run them only every so often.
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Hello,
First thanks for sharing your code!
I have a question regarding the running time od DNA_metropolis:
On the website it takes like 10 second to generate the configuration,
but when I execute…
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From the Java Tips (some rewording necessary)
- [x] For solid water, the sim simplifies the model emphasizing that there is space between the
molecules. A resource for the most common visual for …