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OpenMM's topology objects and readers/writers don't provide enough chemical information to actually parameterize small molecules nonstandard biopolymers, post-translational modifications, glycosylatio…
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@leonjessen I tried this variation of the model that treats the peptides as sequences (this is under the assumption that the order of the peptides actually matters, this may or may not be the case, yo…
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e.g. the query
```SPARQL
SELECT DISTINCT ?item ?itemLabel ?_PubMed_ID
WHERE
{
?item wdt:P31 wd:Q13442814 ;
rdfs:label ?itemLabel .
OPTIONAL { ?item wdt:P698 ?_PubMed_ID. }
FIL…
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Stargen Fake accretion process.
The other day I was looking at some of the Stargen code. I was looking for the file(s) that refer to the elements that are used in the accretion process, because the o…
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**UPDATE: Round 2 has now concluded. Thanks to all who participated! The results announcement can be found [here](https://github.com/OpenSourceMalaria/Series4_PredictiveModel/issues/18).**
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1. Introduce yourself: who are you, where you are from and what are your interests in this course?
2. Respond to at least one of your classmates
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Biolink Model 3.0 introduced a new 'qualifier' framework for knowledge representation and TRAPI query. This new framework will require additional KP test edge information for testing, thus, a new KP t…
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Hi! I'm trying to do some calculations about drugs using clapeyron.jl. I referred to the information in the user guide (using your own parameters). I have written:
```
model = PCSAFT(["griseofulvin"…
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Hi!
Currently, it is not possible to use CDK in modular (i.e., Java 9+ style) Java apps. The reason is
- CDK jars don't contain module-info class, therefore when used as dependencies they are treate…
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On Translator Relay call, SPOKE mention difficulties in mapping some types, e.g food, cell types.
In fact we have cell types: https://biolink.github.io/biolink-model/docs/Cell
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