PheKnowLator

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Simplify input files -- input yaml

5

Use a single `yaml` to organize input ontology and edge sources as well as to specify the information that is needed to parse them. This would enable the replacement of...

callahantiff

TODO: Create YouTube PKT Video

1

### TASK **Task Type:** [`PKT DATA DELIVERY`](https://github.com/callahantiff/PheKnowLator/projects/8#card-51636129) Create a YouTube video (maybe more than one) that can help new users understand the codebase and learn how to build their own...

callahantiff

Bumps [lxml](https://github.com/lxml/lxml) from 4.6.5 to 4.9.1. Changelog Sourced from lxml's changelog. 4.9.1 (2022-07-01) Bugs fixed A crash was resolved when using iterwalk() (or canonicalize()) after parsing certain incorrect input. Note...

dependabot[bot]

Bumps [numpy](https://github.com/numpy/numpy) from 1.21.0 to 1.22.0. Release notes Sourced from numpy's releases. v1.22.0 NumPy 1.22.0 Release Notes NumPy 1.22.0 is a big release featuring the work of 153 contributors spread...

dependabot[bot]

**DON'T MERGE -- ARCHIVE ** Build overhaul v4.0.0

1

*** ### 🛑 **DO NOT USE THIS BRANCH OR MODIFY THIS PR -- CONTENT IS KEPT FOR NOTES** 🛑 *** ### Purpose This PR addresses several issues and overhauls many...

callahantiff

Consider switching to https://identifiers.org/ URI or CURIEs

2

Looking at the currently used identifiers, it seems to be a mixture of OBO PURLs and ad-hoc solutions for some of the molecular entities. identifiers.org identifiers should make it possible...

matthias-samwald

Create Edge-Type Attribute File

15

## Task Add an output file to accompany the node metadata created for each build that provides users with an easy way to identify what type each triple is. ###...

callahantiff

Adding Edge Pattern and Relation Types

3

### New Edge Metadata I am hoping to add two types of relation-specific metadata to the statistics that are currently generated with each KG build: (i) relation types and (ii)...

callahantiff

**Resource Name:** LINCS Consortium Data **Resource URL:** - [https://lincsproject.org/](https://lincsproject.org/) - [https://lincsproject.org/LINCS/centers/data-and-signature-generating-centers](https://lincsproject.org/LINCS/centers/data-and-signature-generating-centers) **Resource License Information:** The following information was taken directly from the [LINCS Release-Policy](https://lincsproject.org/LINCS/data/release-policy): >All investigators are encouraged, to publish...

callahantiff

Script Notebook: OWLNETS_Example_Application.ipynb

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## TASK Script a version of the Jupyter Notebook [`OWLNETS_Example_Application.ipynb`](https://github.com/callahantiff/PheKnowLator/blob/master/notebooks/OWLNETS_Example_Application.ipynb) and figure out how to include it. Probably makes the most sense to push the code back to the original...

callahantiff