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tpoisot committed Oct 12, 2024
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Expand Up @@ -8,7 +8,7 @@ The VIRION database is an atlas of the vertebrate-virus network. It was built by

# Download VIRION

There are several versions of VIRION you can choose from. VIRION is periodically hand-compiled into a new stable version, which includes taxonomic updates to every sub-component of the dataset. The two dynamic sources (GLOBI and GenBank are also scraped and automatically recompiled into an "up-to-date" version on a daily basis. Note that, while the CLOVER and PREDICT source datasets are static, species name changes may not be reflected in these datasets until the entire dataset is manually recompiled, potentially creating discrepancies between these sources. If you want to reproduce the vignettes we present in the publication, you can also download the entire release of [version 0.2.1](https://github.com/viralemergence/virion/releases/tag/v0.2.1-beta).
There are several versions of VIRION you can choose from. VIRION is periodically hand-compiled into a new stable version, which includes taxonomic updates to every sub-component of the dataset. The dynamic dataset (GenBank) is also scraped and automatically recompiled into an "up-to-date" version on a daily basis. Note that, while the CLOVER and PREDICT source datasets are static, species name changes may not be reflected in these datasets until the entire dataset is manually recompiled, potentially creating discrepancies between these sources. If you want to reproduce the vignettes we present in the publication, you can also download the entire release of [version 0.2.1](https://github.com/viralemergence/virion/releases/tag/v0.2.1-beta).

**Full database**: [Up-to-date](Virion.csv.gz) // [Stable](https://github.com/viralemergence/virion/blob/main/Virion/Virion.csv.gz)

Expand Down Expand Up @@ -37,7 +37,6 @@ If you want to cite the VIRION database directly, you can also use refer to [![D
VIRION aggregates seven major sources of information, two of which can be dynamically updated (\*):
- CLOVER, a Verena-curated [database](https://github.com/viralemergence/clover), which reconciles four static datasets on host-pathogen interactions.
- The [public data](https://healthmap.org/predict) released by the USAID Emerging Pandemic Threats PREDICT program.
- GLOBI\*, the [Global Biotic Interactions](http://globalbioticinteractions.org/) database.
- NCBI GenBank\*, specifically the entirety of NCBI Virus accessions stored in the Nucleotide database.

![Virion overview](VIRION2.jpg)
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