spatialdata-io
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store probe set for image-based transcriptomics in spatialdata
after discussion with @LouisK92 and @timtreis we realized it would be useful for spatialdata to also store the probe set used to target mRNA transcripts. Where should that be stored, unclear, maybe uns?
additionaly, save also additional info such as add-on panel Supplemental: Add-on Panel (CSV)
- [ ] save json file in either dataframe or just json in
table.uns - [ ] store additional probe information in
table.var
As discussed during the community call, we can start with var and see how the format from 10x evolves before adding the json dataframe in uns, as it would be a technology-specific way to add metadata and in general we should keep this to a minimum until we have a system taylored for metadata (@melonora).