Gaurav Vaidya
Gaurav Vaidya
Hi there! My colleagues and I are comparing several approaches to [named-entity recognition](https://en.wikipedia.org/wiki/Named-entity_recognition) (NER), including SciGraph's Annotator feature (via [the Monarch API](https://api.monarchinitiative.org/api/#operations-nlp/annotate-post_annotate)). Has anybody already run SciGraph's Annotator on an...
There is currently no way to use SciGraph to look for text in arbitrary text. This PR makes two changes that make this possible. - It makes the `EntityRecognizer` and...
I've been using SciGraph to generate a list of entities referenced in the CORD-19 dataset by using the EntityRecognizer ([relevant code here](https://github.com/NCATS-Gamma/omnicorp/blob/master/src/main/scala/org/renci/robocord/annotator/Annotator.scala)). To do this, I've been using @balhoff's [branch...
When I query `/api/nlp/annotate/entities`, I get back incorrect `text` values (see full description at https://github.com/monarch-initiative/scigraph-docker/issues/11). This might be a reversion of the SciGraph indices bug (https://github.com/SciGraph/SciGraph/pull/281).
**Is your feature request related to a problem? Please describe.** Currently, [a GitHub Action](https://github.com/linkml/linkml/runs/3509419022) (acting as `actions-user`) regenerates expected test files whenever changes are [merged into the `main` branch](https://github.com/linkml/linkml/blob/main/.github/workflows/main.yaml#L59-L71) (e.g....
**Is your feature request related to a problem? Please describe.** LinkML's [`linkml:Date`](https://linkml.io/linkml-model/docs/Date/) type maps to [xsd:date](https://www.w3.org/TR/xmlschema-2/#date), which requires that a year, month and day be provided (`2019-09-03`). However, in some...
**Is your feature request related to a problem? Please describe.** We're currently working on incorporating macromolecular complexes from the [EBI Complex Portal](https://www.ebi.ac.uk/complexportal/) into Babel (https://github.com/TranslatorSRI/Babel/issues/54; https://github.com/TranslatorSRI/Babel/pull/55). We intend to include...
We need to load the metadata into PostgreSQL so that it can be used by the tiler to visualize the layers using metadata values. This should happen as part of...
At the moment, the metadata is stored in two places: on the backend in a PostgreSQL database, and on the frontend in the Google App Engine datastore. For conveniences' sake,...
There are two types of MOL-calculated fields according to the field specification [1] at present: fields like "contributor" and "format" will be filled in by the publisher frontend (depending on...