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Arjun Prasad edited this page Oct 15, 2024 · 55 revisions

Welcome to the wiki for the 2024 ASM NGS Workshop host by NCBI. Below, please find an outline of the workshop with links to materials for individual workshop components. Please also find materials from our workshop as part of ASM NGS 2022 here

Workshop goals

  • Demonstrate use of Pathogen Detection browsers
  • Demonstrate use of GCP BigQuery in the Google Cloud Console to interrogate NCBI data
  • Demonstrate use of NCBI Datasets and Dataformat CLIs
  • Demonstrate how to retrieve SRA Normalized and SRA Lite format files and their differences

Workshop

0 Set-up

1 NCBI Pathogen Detection

2 Datasets

3 SRA

4. Some Useful Links

Don't have a cloud account?

NIH Science and Technology Research Infrastructure for Discovery, Experimentation, and Sustainability (STRIDES) Initiative has launched a new NIH Cloud Lab program that lets you experiment with using cloud for your research. You can request a GCP or AWS account, and will receive $500 and three months, in addition to access to biomedical tutorials that walk you through common cloud-based research use cases. This is available to intramural researchers currently but expect it to be ready for extramural researchers in the coming months. Learn more via this link- https://cloud.nih.gov/resources/cloudlab/

Has this been useful?

Please let us know at suggest@ncbi.nlm.nih.gov if this has been useful and if you're using any of these resources in your work and especially if you use these resources in your publications.

Post-workshop updates

This work was supported by the National Center for Biotechnology Information of the National Library of Medicine (NLM) and the National Institute of Allergy and Infectious disease (NIAID), National Institutes of Health

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