https://github.com/samuel-marsh/screticulater

Scripts for passing single cell analyses from R objects to python packages and back.
https://github.com/samuel-marsh/screticulater

Last synced: about 2 months ago
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Scripts for passing single cell analyses from R objects to python packages and back.

• Host: GitHub
• URL: https://github.com/samuel-marsh/screticulater
• Owner: samuel-marsh
• License: mit
• Created: 2024-03-14T19:05:35.000Z (11 months ago)
• Default Branch: main
• Last Pushed: 2024-03-14T19:38:01.000Z (11 months ago)
• Last Synced: 2024-10-15T09:11:16.036Z (4 months ago)
• Language: R
• Homepage:
• Size: 5.86 KB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        

# scReticulateR

Scripts for passing single cell analyses from R objects to python

packages and back.

## Required packages

In order to run these scripts users must have python installed. The

following R packages are required for communication with python

installation and running scripts.

    # Install R packages

    install.packages("Seurat")

    install.packages("scCustomize")

    install.packages("reticulate")

## Python Packages

Scripts are present for the following python packages/workflows:  

- anticor/pyminer_norm (Detection of anticorrelated features).  

- scDRS (Calculate disease relevance score at single cell level).  

- More to come!

## Full Package

Time permitting (and approved by original authors) I may turn this repo

into R package, ideally on CRAN. However, for now code can be copied

from provided scripts.