YojanaGadiya

CoXPath

Scripts and data from "Towards a global investigation of transcriptomic signatures through co-expression networks and pathway knowledge for the identification of disease mechanisms"

surechembl-data-client

A collection of scripts for retrieving, storing, and querying SureChEMBL data.

analysis

Analyses conducted on HemeMap.

bert

TensorFlow code and pre-trained models for BERT

bert_crf

BERT CRF model for Name Entity Recognition in pytorch

biobert

BioBERT: a pre-trained biomedical language representation model

brat

brat rapid annotation tool (brat) - for all your textual annotation needs

chembl-downloader

Write reproducible code for getting and processing ChEMBL

clinicalBERT

ClinicalBERT: Modeling Clinical Notes and Predicting Hospital Readmission

clinicalBERT-1

repository for Publicly Available Clinical BERT Embeddings

covid-pathways.github.io

Data-Maturity-YG

FAIR Dataset Maturity model

efo

Github repo for the Experimental Factor Ontology (EFO)

FAIR-DSM-Assessment-Tool

FARM

:house_with_garden: Fast & easy transfer learning for NLP. Harvesting language models for the industry.

hemekg

Modeling heme pathogenicity and pathway dysregulation in the context of hemolytic disorders

Image-classification

A java project for classification of biomedical images

kgem-in-drug-discovery

Code to accompany the "Understanding the Performance of Knowledge Graph Embeddings in Drug Discovery" manuscript

Mechanish-enrichment-NeuroMMSig

Lab course for Mechanism enrichment of NeuroMMSig

NER-BERT-CRF

nlp-in-python-tutorial

comparing stand up comedians using natural language processing

OBOFoundry.github.io

Metadata and website for the Open Bio Ontologies Foundry Ontology Registry

PICO_Parser

Parse PubMed abstracts following PICO framework

pytorch_lstmcrf

Pytorch implementation of LSTM-CRF for named entity recognition

scibert

A BERT model for scientific text.

stanfordnlp

[Deprecated] This library has been renamed to "Stanza". Latest development at: https://github.com/stanfordnlp/stanza

streamlit-example

Example Streamlit app that you can fork to test out share.streamlit.io

the-fair-cookbook

The FAIR cookbook, containing recipes to make your data more FAIR. Find the rendered version on:

transformers

🤗Transformers: State-of-the-art Natural Language Processing for Pytorch and TensorFlow 2.0.

YojanaGadiya