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Covid-19 | ||
======== | ||
.. figure:: https://github.com/asreview/asreview/blob/master/images/intro-covid19-small.png?raw=true | ||
:alt: ASReview against COVID19 | ||
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.. figure:: ../images/intro-covid19-small.png | ||
:alt: COVID-19 extension | ||
Extension to add publications on COVID-19 to | ||
`ASReview <https://github.com/asreview/asreview>`__. | ||
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ASReview against COVID-19 | ||
========================= | ||
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To help combat the Covid-19 crisis, the ASReview Core Development team has decided to release a package that provides the latest scientific datasets on Covid-19. These are integrated automatically into ASReview once we install the correct packages, so reviewers can start reviewing the latest scientific literature on Covid-19 as soon as possible! | ||
The Active learning for Systematic Reviews software | ||
`ASReview <https://github.com/asreview/asreview>`__ implements learning | ||
algorithms that interactively query the researcher during the title and | ||
abstract reading phase of a systematic search. This way of interactive | ||
training is known as active learning. ASReview offers support for | ||
classical learning algorithms and state-of-the-art learning algorithms | ||
like neural networks. The software can be used for traditional | ||
systematic reviews for which the user uploads a dataset of papers, or | ||
one can make use of the built-in datasets. | ||
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Installation | ||
------------ | ||
To help combat the COVID-19 crisis, the ASReview team released an | ||
extension that integrates the latest scientific datasets on COVID-19 in | ||
the ASReview software. | ||
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To install the Covid-19 package for ASReview, we assume you have installed the main ASReview software. If not, we refer to the :doc:`installation <installation>` page. Once ASReview has been installed, you can go to your terminal again and type "pip install asreview-covid19". This should install the Covid-19 package. We can now run the ASReview software again, by typing "asreview oracle" in the terminal. This should start the ASReview GUI. When we create a new project, the Covid-19 datasets should appear. When we select one of these, we can start reviewing the Covid-19 dataset! | ||
CORD-19 dataset | ||
--------------- | ||
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The `CORD-19 | ||
dataset <https://pages.semanticscholar.org/coronavirus-research>`__ is a | ||
dataset with scientific publications on COVID-19 and coronavirus-related | ||
research (e.g. SARS, MERS, etc.) from PubMed Central, the WHO COVID-19 | ||
database of publications, the preprint servers bioRxiv and medRxiv and | ||
papers contributed by specific publishers (currently Elsevier). The | ||
dataset is compiled and maintained by a collaboration of the Allen | ||
Institute for AI, the Chan Zuckerberg Initiative, Georgetown | ||
University’s Center for Security and Emerging Technology, Microsoft | ||
Research, and the National Library of Medicine of the National | ||
Institutes of Health. Version 5 of the dataset | ||
(`csv <https://ai2-semanticscholar-cord-19.s3-us-west-2.amazonaws.com/2020-03-27/metadata.csv>`__, | ||
dated March 27, 2020) contains metadata of 45.8K publications on | ||
COVID-19 and coronavirus-related research. The CORD-19 dataset is | ||
updated weekly. | ||
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ASReview plugin | ||
--------------- | ||
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To help combat the COVID-19 crisis, the ASReview team has decided to | ||
release a package that provides the latest scientific datasets on | ||
COVID-19. These are integrated automatically into ASReview once we | ||
install the correct packages, so reviewers can start reviewing the | ||
latest scientific literature on COVID-19 as soon as possible! Two | ||
versions of the CORD-19 dataset (publications relating to COVID-19) are | ||
made available in ASReview: | ||
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- full CORD-19 dataset | ||
- CORD-19 dataset with publications from December 2019 onwards | ||
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The datasets are updated in ASReview plugin shortly after the release by | ||
the Allen Institute for AI. | ||
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Installation and usage | ||
---------------------- | ||
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The COVID-19 plug-in requires ASReview 0.8 or higher. Install ASReview | ||
by following the instructions in `Installation of | ||
ASReview <https://asreview.readthedocs.io/en/latest/installation.html>`__. | ||
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Install the extension with pip: | ||
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.. code:: bash | ||
pip install asreview-covid19 | ||
The datasets are immediately available after starting ASReview. | ||
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.. code:: bash | ||
asreview oracle | ||
The datasets are selectable in Step 2 of the project initialization. For | ||
more information on the usage of ASReview, please have a look at the | ||
`Quick | ||
Tour <https://asreview.readthedocs.io/en/latest/quicktour.html>`__. | ||
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|ASReview CORD19 datasets| | ||
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License | ||
------- | ||
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The ASReview software and the plugin have an Apache 2.0 LICENSE. For the | ||
datasets, please see the license of the CORD-19 dataset | ||
https://pages.semanticscholar.org/coronavirus-research. | ||
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.. |ASReview CORD19 datasets| image:: https://github.com/asreview/asreview/blob/master/images/asrewiew-plugin-cord19-dataset.png?raw=true | ||
:target: https://github.com/asreview/asreview-covid19 |