cellCycle2 | R Documentation |
This function executes a ubuntu docker that associates to each cell a cell cycle stage
cellCycle2(
group = c("sudo", "docker"),
scratch.folder,
file,
separator,
G1_a,
G1_b,
S_a,
S_b,
G2M_a,
G2M_b,
seed = 111
)
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 |
file |
a character string indicating the folder where input data are located and where output will be written and matrix name "/bin/users/matrix.csv" |
separator |
separator used in count file, e.g. '\t', ',' |
G1_a |
starting point in time series for G1 phase |
G1_b |
ending point in time series for G1 phase |
S_a |
starting point in time series for S phase |
S_b |
ending point in time series for S phase |
G2M_a |
starting point in time series for G2M phase |
G2M_b |
ending point in time series for G2M phase |
seed |
important parameter for reproduce the same result with the same input |
will change all the files generated from permAnalysis algorithm in a new folder matrixName_Cluster_merged/
Luca Alessandri , alessandri [dot] luca1991 [at] gmail [dot] com, University of Torino
## Not run:
#getwd(link)
#unzipFolder
scratch.folder=paste(getwd(),"/scratch",sep="")
file=paste(getwd(),"/data/annotated_Buettner.csv",sep="")
cellCycle2(group="docker",scratch.folder,file,separator=",",G1_a=22,G1_b=23,S_a=22,S_b=23,G2M_a=85,G2M_b=86,seed=111)
## End(Not run)
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