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View Code? Open in Web Editor NEWSource for IDC documentation
Home Page: https://learn.canceridc.dev/
License: BSD 3-Clause "New" or "Revised" License
Source for IDC documentation
Home Page: https://learn.canceridc.dev/
License: BSD 3-Clause "New" or "Revised" License
Start from what we used to have here: https://github.com/ImagingDataCommons/IDC-Docs/blob/12ff0285970581d49af6bb87acdb60856207539a/data/downloading-data/downloading-data-with-s5cmd.md
BQ datasets should be created in the US, otherwise:
from Fabian:
Hi Andrey,
I’ve attached the files that David did again, we host the Jupyter notebook (the ipynb and the pdf) in our github:
https://github.com/isb-cgc/Community-Notebooks/blob/master/TeachingMaterials/2021-10-NIHLibrarySession/ISB_Cancer_Gateway_in_the_Cloud_(ISB_CGC)_SQL_Reference_Guide.ipynb
There are also three more colab notebooks in the same directory that we converted into a mybinder for our teaching session yesterday.
https://github.com/isb-cgc/Community-Notebooks/tree/master/TeachingMaterials/2021-10-NIHLibrarySession
Let me know if you need any more information
best,
Fabian
Link to doc - https://learn.canceridc.dev/data/downloading-data
Reference relevant ISB docs, discuss risks and recommendations for Colab usage.
Explain that data can be downloaded from the buckets, link to download instructions
Currently no links to tables in https://learn.canceridc.dev/data/organization-of-data/files-and-metadata
Some of them are not broken, it's just that the formatting GitBook does makes them look broken in .md...
https://github.com/ImagingDataCommons/IDC-Docs/runs/5253666566?check_suite_focus=true
There appears to be a missing link to the list of collections in our storage bucket.
Need to add sample url and example command line to give people the idea how to use the data.
https://learn.canceridc.dev/data/organization-of-data#storage-buckets
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