add sopa meta.yaml file

[quentinblampey]

Name of the tool: sopa

Short description: Sopa enables processing and analyses of image-based spatial-omics using a standard data structure and output. We currently support the following technologies: Xenium, MERSCOPE, CosMX, PhenoCycler, MACSIMA, Hyperion. Sopa was designed for generability and low-memory consumption on large images (scales to 1TB+ images). The pipeline outputs contain: (i) Xenium Explorer files for interactive visualization, (ii) a HTML report for quick quality controls, and (iii) a SpatialData .zarr directory for further analyses.

How does the package use scverse data structures (please describe in a few sentences): sopa is built on top of spatialdata, a recent scverse data structure. Sopa also has a great interoperability with packages such as scanpy or squidpy.

• The code is publicly available under an OSI-approved license
• The package provides versioned releases
• The package can be installed from a standard registry (e.g. PyPI, conda-forge, bioconda)
• The package uses automated software tests and runs them via continuous integration (CI)
• The package provides API documentation via a website or README
• The package uses scverse datastructures where appropriate (i.e. AnnData, MuData or SpatialData and their modality-specific extensions)
• I am an author or maintainer of the tool and agree on listing the package on the scverse website

Recommended

• Please announce this package on scverse communication channels (zulip, discourse, twitter) -> done on Twitter, see here: https://x.com/QuentinBlampey/status/1742850528898437481?s=20
• Please tag the author(s) these announcements. Handles (e.g. @scverse_team) to include are:
  • Twitter: QuentinBlampey
  • Zulip: Quentin Blampey
  • Discourse:
  • Mastodon:
• The package provides tutorials (or "vignettes") that help getting users started quickly -> I will add a few tutorials, but the documentation already contains details for the snakemake pipeline, the CLI, and also the API.
• The package uses the scverse cookiecutter template.

[grst]

LGTM! Thanks for submitting the package!

[grst]

@mikelkou, has this one been announced yet?