Seurat Integration

This function executes a ubuntu docker that performs seurat integration

seuratIntegrationMulti(
  group = c("sudo", "docker"),
  scratch.folder,
  folder,
  separator,
  resName,
  format,
  nFeature = 2000
)

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

folder,

a character string indicating the path of the folder containing the counts matrices to be integrated

separator,

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

resName,

name for result matrix

format,

format for all the matrix that has to be integrated. Format has to be all the same

nFeature,

number of features used for the generation of the anchors

Value

file containing the normalized matrix with the anchors

Author

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

Examples

if (FALSE) {
seuratIntegrationMulti(group=c("sudo"), scratch.folder="/home/user/scratch", folder="/home/user/folderWithFiles",separator=",",resName="test",format="csv")
 #to be added
}