BioWilko
commented
2 years ago Hi
A couple of notes:
- The workflow is not SARS-CoV-2 exclusive, theoretically it should work with any ONT amplicon-based viral sequencing given a bed file and a reference.
- The name of the pipeline is "artic fieldbioinformatics" rather than just "artic"
- Please link to this repo in the table rather than the artic-ncov2019 protocol repo since that is the repository for information on the wetlab protocol rather than data analysis.
thomasbtf
Hello ARTIC Team,
I am from the University Hospital Essen, Germany, and we work extensively with SARS-CoV-2 in our research. We have also developed a SARS-CoV-2 workflow. In preparation for the publication of our workflow, we have looked at several other SARS-CoV-2 related workflows, including your work. We will present this review in the publication and want to ensure that your work is represented as accurately as possible.
Moreover, there is currently little to no current overview of SARS-CoV-2 related workflows. Therefore, we have decided to make the above comparison publicly available via this GitHub repository. It contains a table with an overview of the functions of different SARS-CoV-2 workflows and the tools used to implement these functions.
We would like to give you the opportunity to correct any misunderstandings on our side. Please take a moment to make sure we are not misrepresenting your work or leaving out important parts of it by taking a look at this overview table. If you feel that something is missing or misrepresented, please feel free to give us feedback by contributing directly to the repository.
Thank you very much!
cc @alethomas