CID.writeJSON: Writes JSON file for SPRING integration

In mathewchamberlain/SignacX: Cell Type Identification and Discovery from Single Cell Gene Expression Data

Writes JSON file for SPRING integration

Description

CID.writeJSON is a SPRING-integrated function for writing a JSON file.

Usage

CID.writeJSON(
  cr,
  json_new = "categorical_coloring_data.json",
  spring.dir,
  new_populations = NULL,
  new_colors = NULL
)

Arguments

cr	output from GenerateLabels
json_new	Filename where annotations will be saved for new SPRING color tracks. Default is "categorical_coloring_data_new.json".
spring.dir	Directory where file 'categorical_coloring_data.json' is located. If set, will add Signac annotations to the file.
new_populations	Character vector specifying any new cell types that Signac has learned. Default is NULL.
new_colors	Character vector specifying the HEX color codes for new cell types. Default is NULL.

Value

A categorical_coloring_data.json file with Signac annotations and Louvain clusters added.

mathewchamberlain/SignacX documentation built on March 3, 2023, 2:46 a.m.