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allyhawkins merged 2 commits into from
Mar 19, 2026
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Restore FAQ for downloading programmatically #493

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restore FAQ for downloading programmatically
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3 changes: 2 additions & 1 deletion docs/faq.md
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Expand Up @@ -291,13 +291,14 @@ Download links expire in 7 days, but you can generate a new link on the ScPCA Po
Download links are only available for projects (i.e., not for downloading individual samples).

## Can I download data from the Portal programmatically?
## Why can't I change the data format in My Dataset?

We provide an R package, [`ScPCAr`](https://alexslemonade.github.io/ScPCAr/), to facilitate programmatic access to the ScPCA Portal.
This package allows you to search for and download data from the ScPCA Portal directly within R.
Please see the [package documentation](https://alexslemonade.github.io/ScPCAr/) for more details about installation and usage.
Source code for the package can be found on [GitHub](https://github.com/AlexsLemonade/ScPCAr).

## Why can't I change the data format in My Dataset?

When creating a {ref}`custom dataset for download<download_files:Custom datasets>` (`My Dataset`), all single-cell sample or project data included must be of the same {ref}`data format<download_options:Data format>`, either `SingleCellExperiment` for use in R or `AnnData` for use in Python.
We currently do not support including both data formats at once in `My Dataset`.
Once a sample or project of a given data format has been added to `My Dataset`, all subsequent single-cell or single-nuclei data added will automatically be in that same format.
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