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@dhimmel I have been thinking about what we discussed regarding the unsupervised approaches we could use in the future. If I understand roughly correctly, what we want to do is implement a system whic…
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Follows up on https://github.com/greenelab/hetmech/pull/81 by @naglem.
IIRC, some of the in-progress versions of `pqtl.tsv` from https://github.com/greenelab/hetmech/pull/81 had a column titled `pq…
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We currently have implemented the DWPC (see #45) for certain metapaths. The question is, of the 1,206 metapaths in Project Rephetio, how many will our current implementation succeed on?
You can get…
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xref #29
One item in the TODO list was "Kyle can help show how to perform matrix normalizations in a manner that is easier to do on cypher."
I don't remember addressing this, is it still a concer…
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The diffusion code we have in https://github.com/greenelab/hetmech/blob/e387eee580cfe3d530a21c92df025afd9f668784/hetmech/diffusion.py
can be made to compute the DWPC for an input metapath.
Implement…
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I created the environment via conda, as per the instructions in the README, but this failed to install neo4j-driver for some reason:
![screenshot from 2017-05-22 11-46-31](https://cloud.githubuserc…
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@kkloste meet @zietzm (undergrad at Penn starting to work in the Greene Lab). From now until the summer, I'm planning to deploy @zietzm on several small (potentially random) tasks to build his develop…
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The dual_normalize test function only checks that column normalization works properly -- correct to check row normalization as well.
https://github.com/greenelab/hetmech/blob/e387eee580cfe3d530a21c…
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`column_damping` repeated twice.
https://github.com/greenelab/hetmech/blob/f54bd7e2b767682f3592a1c5c4fab64d0f17cf99/hetmech/diffusion.py#L14-L15
Consider adding doc for when `column_damping=1`.
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Once testing is created in https://github.com/greenelab/hetmech/issues/10.
My choice would be Travis CI, since it's easy to configure conda with Travis.