covid question answering datasets and fine tuned models

Related tags

Deep LearningCovid-QA
Overview

Covid-QA

Fine tuned models for question answering on Covid-19 data.

Hosted Inference

This model has been contributed to huggingface.Click here to see the model in action!

Dependencies

pip install -r requirements.txt

Getting Started

cd longformer_qa

Dataset

Covid 19 QA data obtained from transformers: covid QA deepset.
Data Generation script: generate_data.py

Inference

Longformer model fine tuned on the data: download.
download and unzip inside longformer_qa/.
Scripts on longformer_inference.py

from longformer_inference import qa
print(qa(question,context))

Example

 print(qa("What is the main cause of HIV-1 infection in children?","Functional Genetic Variants in DC-SIGNR Are Associated with Mother-to-Child Transmission of HIV-1\n\nhttps:\/\/www.ncbi.nlm.nih.gov\/pmc\/articles\/PMC2752805\/\n\nBoily-Larouche, Genevi\u00e8ve; Iscache, Anne-Laure; Zijenah, Lynn S.; Humphrey, Jean H.; Mouland, Andrew J.; Ward, Brian J.; Roger, Michel\n2009-10-07\nDOI:10.1371\/journal.pone.0007211\nLicense:cc-by\n\nAbstract: BACKGROUND: Mother-to-child transmission (MTCT) is the main cause of HIV-1 infection in children worldwide. Given that the C-type lectin receptor, dendritic cell-specific ICAM-grabbing non-integrin-related (DC-SIGNR, also known as CD209L or liver\/lymph node\u2013specific ICAM-grabbing non-integrin (L-SIGN)), can interact with pathogens including HIV-1 and is expressed at the maternal-fetal interface, we hypothesized that it could influence MTCT of HIV-1. METHODS AND FINDINGS: To investigate the potential role of DC-SIGNR in MTCT of HIV-1, we carried out a genetic association study of DC-SIGNR in a well-characterized cohort of 197 HIV-infected mothers and their infants recruited in Harare, Zimbabwe. Infants harbouring two copies of DC-SIGNR H1 and\/or H3 haplotypes (H1-H1, H1-H3, H3-H3) had a 3.6-fold increased risk of in utero (IU) (P = 0.013) HIV-1 infection and a 5.7-fold increased risk of intrapartum (IP) (P = 0.025) HIV-1"))
 
 >>>Mother-to-child transmission (MTCT)

Fine Tuning

Fine tuning script on longformer_finetune.py

Evaluation

Run evaluator.py to evaluate F1/EM scores. Current Scores : F1:62.3 | EM:37.83

Owner
Abhijith Neil Abraham
AI Research Engineer
Abhijith Neil Abraham
GitHub Repository
Time Series Cross-Validation -- an extension for scikit-learn

TSCV: Time Series Cross-Validation This repository is a scikit-learn extension for time series cross-validation. It introduces gaps between the traini

Wenjie Zheng 222 Jan 01, 2023
Official pytorch code for "APP: Anytime Progressive Pruning"

APP: Anytime Progressive Pruning Diganta Misra1,2,3, Bharat Runwal2,4, Tianlong Chen5, Zhangyang Wang5, Irina Rish1,3 1 Mila - Quebec AI Institute,2 L

Landskape AI 12 Nov 22, 2022
Simple codebase for flexible neural net training

neural-modular Simple codebase for flexible neural net training. Allows for seamless exchange of models, dataset, and optimizers. Uses hydra for confi

Jannik Kossen 7 Apr 05, 2022
Deep deconfounded recommender (Deep-Deconf) for paper "Deep causal reasoning for recommendations"

Deep Causal Reasoning for Recommender Systems The codes are associated with the following paper: Deep Causal Reasoning for Recommendations, Yaochen Zh

Yaochen Zhu 22 Oct 15, 2022
Get 2D point positions (e.g., facial landmarks) projected on 3D mesh

points2d_projection_mesh Input 2D points (e.g. facial landmarks) on an image Camera parameters (extrinsic and intrinsic) of the image Aligned 3D mesh

5 Dec 08, 2022
Implementation of Segnet, FCN, UNet , PSPNet and other models in Keras.

Image Segmentation Keras : Implementation of Segnet, FCN, UNet, PSPNet and other models in Keras. Implementation of various Deep Image Segmentation mo

Divam Gupta 2.6k Jan 05, 2023
Deep Learning Tutorial for Kaggle Ultrasound Nerve Segmentation competition, using Keras

Deep Learning Tutorial for Kaggle Ultrasound Nerve Segmentation competition, using Keras This tutorial shows how to use Keras library to build deep ne

Marko Jocić 922 Dec 19, 2022
A Pytorch implementation of SMU: SMOOTH ACTIVATION FUNCTION FOR DEEP NETWORKS USING SMOOTHING MAXIMUM TECHNIQUE

SMU_pytorch A Pytorch Implementation of SMU: SMOOTH ACTIVATION FUNCTION FOR DEEP NETWORKS USING SMOOTHING MAXIMUM TECHNIQUE arXiv https://arxiv.org/ab

Fuhang 36 Dec 24, 2022
a minimal terminal with python 😎😉

Meterm a terminal with python 😎 How to use Clone Project: $ git clone https://github.com/motahharm/meterm.git Run: in Terminal: meterm.exe Or pip ins

Motahhar.Mokfi 5 Jan 28, 2022
Automatic voice-synthetised summaries of latest research papers on arXiv

PaperWhisperer PaperWhisperer is a Python application that keeps you up-to-date with research papers. How? It retrieves the latest articles from arXiv

Valerio Velardo 124 Dec 20, 2022
Implementation of the SUMO (Slim U-Net trained on MODA) model

SUMO - Slim U-Net trained on MODA Implementation of the SUMO (Slim U-Net trained on MODA) model as described in: TODO: add reference to paper once ava

6 Nov 19, 2022
Face Recognition & AI Based Smart Attendance Monitoring System.

In today’s generation, authentication is one of the biggest problems in our society. So, one of the most known techniques used for authentication is h

Sagar Saha 1 Jan 14, 2022
Tensorforce: a TensorFlow library for applied reinforcement learning

Tensorforce: a TensorFlow library for applied reinforcement learning Introduction Tensorforce is an open-source deep reinforcement learning framework,

Tensorforce 3.2k Jan 02, 2023
[AAAI 2021] MVFNet: Multi-View Fusion Network for Efficient Video Recognition

MVFNet: Multi-View Fusion Network for Efficient Video Recognition (AAAI 2021) Overview We release the code of the MVFNet (Multi-View Fusion Network).

Wenhao Wu 114 Nov 27, 2022
Implementation of GeoDiff: a Geometric Diffusion Model for Molecular Conformation Generation (ICLR 2022).

GeoDiff: a Geometric Diffusion Model for Molecular Conformation Generation [OpenReview] [arXiv] [Code] The official implementation of GeoDiff: A Geome

Minkai Xu 155 Dec 26, 2022
This repository is the official implementation of Open Rule Induction. This paper has been accepted to NeurIPS 2021.

Open Rule Induction This repository is the official implementation of Open Rule Induction. This paper has been accepted to NeurIPS 2021. Abstract Rule

Xingran Chen 16 Nov 14, 2022
Official Repository for our ECCV2020 paper: Imbalanced Continual Learning with Partitioning Reservoir Sampling

Imbalanced Continual Learning with Partioning Reservoir Sampling This repository contains the official PyTorch implementation and the dataset for our

Chris Dongjoo Kim 40 Sep 18, 2022
Official release of MSHT: Multi-stage Hybrid Transformer for the ROSE Image Analysis of Pancreatic Cancer axriv: http://arxiv.org/abs/2112.13513

MSHT: Multi-stage Hybrid Transformer for the ROSE Image Analysis This is the official page of the MSHT with its experimental script and records. We de

Tianyi Zhang 53 Dec 27, 2022
An example of time series augmentation methods with Keras

Time Series Augmentation This is a collection of time series data augmentation methods and an example use using Keras. News 2020/04/16: Repository Cre

九州大学 ヒューマンインタフェース研究室 229 Jan 02, 2023
Tutorial on scikit-learn and IPython for parallel machine learning

Parallel Machine Learning with scikit-learn and IPython Video recording of this tutorial given at PyCon in 2013. The tutorial material has been rearra

Olivier Grisel 1.6k Dec 26, 2022