Startrac.run {scRepertoire}R Documentation

warpper function for Startrac analysis

Description

warpper function for Startrac analysis

Usage

Startrac.run(
  cell.data,
  proj = "CRC",
  cores = NULL,
  n.perm = NULL,
  verbose = FALSE
)

Arguments

cell.data

data.frame. Each line for a cell, and these columns as required: 'Cell_Name', 'clone.id', 'patient', 'majorCluster', 'loc'

proj

character. String used to annotate the project.

cores

integer. number of core to be used. default: NULL.

n.perm

integer. number of permutation will be performed. If NULL, no permutation. (default: NULL)

verbose

logical. wheter return intermediate result (some Startrac objects)

Details

run the Startrac pipeline

Value

an list contains data.frame elements "cluster.data","pIndex.migr" and "pIndex.tran"


[Package scRepertoire version 1.3.1 Index]