Hello. Does Seqera have anything for interactive d...
# seqera-platform-community-help
k
Hello. Does Seqera have anything for interactive downstream analysis of single-cell and spatial data? like a built-in h5ad/AnnData viewer or a way to run Scanpy/Squidpy notebooks directly against pipeline outputs?
p
Sounds like you might be looking for Studios? seqera.io/platform/studios
It has presets for notebooks, but you can supply any custom container you like, so it can run just about anything
And it runs (or can run) on the same compute environments that you run your pipelines with, you choose which data to mount from from Data Explorer (the same buckets you use for pipelines) and it shows up in the studio as a regular filesystem
Note that we also have some native file format viewers built into data explorer (IGV, pymol) so if theres a h5ad/AnnData viewer that is suitable then that could be a great feature request 🙂 Then you can poke around in your browser without needing to fire up anything at all.
Equally, if you think we should have some default templates for Studios to handle this kind of data, that's also something we can work with you on.
(between us, we're hoping to have a better way of publishing / browsing / finding studio templates in the near future 🤫)
Shout if you have any questions 🙂