# Serratus

Serratus is a collaborative Open Science project for ultra-rapid discovery of all viruses.

#### Paper: [Petabase-scale sequence alignment catalyses viral discovery](https://www.nature.com/articles/s41586-021-04332-2)

[![Serratus Mountain in Squamish, BC. Canada](https://github.com/ababaian/serratus/wiki/img/splash.png)](https://www.biorxiv.org/content/10.1101/2020.08.07.241729v1)

### Background

_Forewarned is Forearmed._

Our primary goal is to generate the viral data to accelerate the global research efforts in fighting emerging pathogens. We are re-analyzing all RNA-seq, meta-genomics, meta-transcriptomics and environmental sequencing data in the NCBI Short Read Archive to discover new viruses. That is **>6 million biological samples** or >10 petabases of sequencing data.

### Contribute to Serratus
The `Serratus` team is actively looking to collaborate with all scientists and developers.

- See: [CONTRIBUTING.md](CONTRIBUTING.md)
- Join the [`Serratus Slack`](mailto:artem@rRNA.ca?subject=Joining%20the%20Serratus%20slack&body=Hello%20I%20would%20like%20to%20join%20the%20Serratus%20chat.%20Thanks!) to chat / ask a question.

# Serratus Usage
Learn more on the [Serratus Wiki](https://github.com/ababaian/serratus/wiki/)

### [Serratus Data Explorer](https://serratus.io)

### [palmID: RdRP search](https://serratus.io/palmid)

### [How To: Finding Novel Viruses](https://github.com/ababaian/serratus/wiki/Find_novel_viruses)

### [Accessing Raw Data](https://github.com/ababaian/serratus/wiki/Access-Data-Release) 

### [Cloud Architecture](https://github.com/ababaian/serratus/wiki/Architecture-and-Pipeline)

### [Serratus CLI Usage](https://github.com/ababaian/serratus/wiki/Running-Serratus)

# Data Release Policy

Our primary goal is to generate the viral data to accelerate the global research efforts in fighting emerging pathogens. To achieve this:

- All software development is open-source and freely available (GPLv3)

- All data, raw and processed, will be freely and immediatly available in the public domain in accordance with the [INSDC Policy](https://www.insdc.org/policy/).

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## [About The Team](CONTRIBUTORS.md)