Some studies of the Human Cell Atlas cannot be found

[KoppGergely]

Dear developers,

First of all, thank you for the package, it's a great and super useful tool.

I am trying to access the data of a gastric cancer tumor study on HCA, namely: https://data.humancellatlas.org/explore/projects/18e58437-76b7-4021-8ede-3f0b443fa915

So far I was unable to find this study by exploring the metadata of your package. I'm not sure if it's because it is not included in your data, or because I'm looking the wrong way.

Could you please let me know how to check specifically for HCA studies in the metadata?

Thank you for your help

[stemangiola]

On your page, there is this link

Lok for this

18e58437-76b7-4021-8ede-3f0b443fa915

In the file_id or dataset_id columns.

If you find it, you could add this (how to search a dataset from the CELLxGENE website) to the README as a pull request ;)

[KoppGergely]

meta %>% filter(file_id == "18e58437-76b7-4021-8ede-3f0b443fa915" | dataset_id == "18e58437-76b7-4021-8ede-3f0b443fa915")
results in a database of 0 rows, so the ID cannot be found in neither columns.

[stemangiola]

The first question I gave in mind is: is this dataset available through

https://github.com/mtmorgan/cellxgenedp

We gather the data from there. When was this dataset added to cellxgene, if it's new in CELLxGENE database, > Feb 2023, we might include it in our next version of CuratedAtlasQuery