Seurat Integration

This function executes a ubuntu docker that performs seurat integration

seuratIntegration(
  group = c("sudo", "docker"),
  scratch.folder,
  file1,
  file2,
  separator1,
  separator2,
  seed,
  k = 0.5
)

Arguments

group,

a character string. Two options: sudo or docker, depending to which group the user belongs

scratch.folder,

a character string indicating the path of the scratch folder

file1,

a character string indicating the path of the first matrix

file2,

a character string indicating the path of the second matrix

separator1,

separator used in count file, e.g. '\t', ','

separator2,

separator used in count file, e.g. '\t', ','

seed,

integer file necessary for reproducibility

k,

resolution for Seurat Analysis

Value

file containing the cluster association in the datasets merged by seurat

Author

Luca Alessandri, alessandri [dot] luca1991 [at] gmail [dot] com, University of Torino

Examples

if (FALSE) {
seuratIntegration(group="docker", scratch.folder="/home/user/scratch", file1="/home/user/dockerFile/Seurat_join_DAPUSHARE/function/example/set1.csv",file2="/home/user/dockerFile/Seurat_join_DAPUSHARE/function/example/setA.csv", separator1=",",separator2=",",seed=1111) 
}