Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Add SC2Spa #113

Merged
merged 4 commits into from
Aug 1, 2023
Merged

Add SC2Spa #113

merged 4 commits into from
Aug 1, 2023

Commits on Jul 27, 2023

  1. Create meta.yaml

    Mandatory
    Name of the tool: SC2Spa
    
    Short description: SC2Spa is a deep learning-based tool to predict the spatial coordinates of single cells.
    
    How does the package use scverse data structures (please describe in a few sentences):  scanpy and anndata are used for preprocessing for SC2Spa. SquidPy is used to calculate Moran's I in the downstream analysis of SC2Spa.
    
     The code is publicly available under an OSI-approved license
    Yes, SC2Spa is under BSD 3-Clause license
    
     The package provides versioned releases
    Yes
    
    The package can be installed from a standard registry (e.g. PyPI, conda-forge, bioconda)
    Yes, SC2Spa can be installed from PyPI
    
     The package uses automated software tests and runs them via continuous integration (CI)
    Yes
    
     The package provides API documentation via a website or README
    Yes
    
     The package uses scverse datastructures where appropriate (i.e. AnnData, MuData or SpatialData and their modality-specific extensions)
    Yes, SC2Spa uses AnnData, SCANPY and SquidPy
    
     I am the author or maintainer of the tool and agree on listing the package on the scverse website
    Yes
    
    Recommended
     I would like this package to be announced on scverse channels (zulip, discourse, twitter) [Include twitter handles you want us to tag]:
    Yes, I would recommend these handles: SC2Spa, Spatial Inference, scRNA-seq, spatial transcriptomics, predict spatial coordinates, cell communication.
    
     The package provides tutorials (or "vignettes") that help getting users started quickly
    Yes, SC2Spa provides readthedocs tutorials.
    
     The package uses the scverse cookiecutter template.
    No, but I will consider adding this feature in the future
    linbuliao authored Jul 27, 2023
    Configuration menu
    Copy the full SHA
    1457a63 View commit details
    Browse the repository at this point in the history
  2. Configuration menu
    Copy the full SHA
    3af9caf View commit details
    Browse the repository at this point in the history
  3. Update Add SC2Spa

    linbuliao authored Jul 27, 2023
    Configuration menu
    Copy the full SHA
    e7c5e9e View commit details
    Browse the repository at this point in the history

Commits on Jul 31, 2023

  1. Configuration menu
    Copy the full SHA
    27ec9af View commit details
    Browse the repository at this point in the history