bioconductor-cellxgenedp

name	bioconductor-cellxgenedp
description	The cellxgene data portal (https://cellxgene.cziscience.com/) provides a graphical user interface to collections of single-cell sequence data processed in standard ways to 'count matrix' summaries. The cellxgenedp package provides an alternative, R-based inteface, allowind data discovery, viewing, and downloading.

cellxgenedp

Workflows

Standard Workflow

The cellxgene data portal (https://cellxgene.cziscience.com/) provides a graphical user interface to collections of single-cell sequence data processed in standard ways to 'count matrix' summaries. The cellxgenedp package provides an alternative, R-based inteface, allowind data discovery, viewing, and downloading.

library(cellxgenedp)
library(dplyr)

# 1. Initialize database
cellxgene_db <- db()

# 2. Discover collections, datasets, and authors
cols <- collections(cellxgene_db)
dsets <- datasets(cellxgene_db)
auths <- authors()

# 3. Query datasets by specific author
author_datasets <- left_join(
  authors()
  datasets
  by  
  relationship  



covid_datasets  author_datasets 
  filterfacets_filterdisease