Bridging and Extending the CytobankAPI Package in R to the Cytobank Web Application

A collection of tools that leverage the CytobankAPI R package < https://cran.r-project.org/web/packages/CytobankAPI/vignettes/cytobank-quickstart.html> to complete more complex workflows, and add/extend various Cytobank features.

Overview

The CytobankBridgeR package contains various tools to interact with Cytobank in R. This includes scripts, algorithms, etc.

First, generate a personal access token (PAT). Check the box for repo to enable downloading private repos you have access to in R.

# install.packages("devtools")
devtools::install_github("cytobank/CytobankR", auth_token="YOUR_PERSONAL_ACCESS_TOKEN_HERE")

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R scripts added:
- gates.apply_cluster_gates: Apply cluster gates based off of cluster IDs
  - Allows for multicluster gate options
- spade.bubble_spade_nodes: Automatically bubble each SPADE node based off a given prefix

install.packages("CytobankBridgeR")

1.0.0 by Preston Ng, 3 years ago

Browse source code at https://github.com/cran/CytobankBridgeR

Authors: Preston Ng [aut, cre] , Katherine Drake [aut] , Chris Ciccolella [aut]

Documentation: PDF Manual

Artistic-2.0 license

Depends on CytobankAPI, stats

Suggests rmarkdown