autoencoderAnalysis.Rd
This function Compress data using autoencoder partially connected
autoencoderAnalysis( group = c("sudo", "docker"), scratch.folder, file, separator, nCluster, projectName, seed = 1111, Sp, bestPerm = 1 )
group, | a character string. Two options: sudo or docker, depending to which group the user belongs |
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scratch.folder, | a character string indicating the path of the scratch folder |
file, | a character string indicating the path of the file, with file name and extension included.Has to be the one in the projectName folder.Different so from the previous one. |
separator, | separator used in count file, e.g. '\t', ',' |
nCluster, | number of cluster in which the dataset is divided |
projectName, | might be different from the matrixname in order to perform different analysis on the same dataset |
seed, | important value to reproduce the same results with same input |
Sp, | minimun number of percentage of cells that has to be in common between two permutation to be the same cluster. |
bestPerm, | bestPermutation number, just for visualization |
Luca Alessandri, alessandri [dot] luca1991 [at] gmail [dot] com, University of Torino
if (FALSE) { autoencoderClustering(group="docker", scratch.folder="/home/user/Riccardo/Riccardo/1_inDocker_2/scratch", file="/home/user/Riccardo/Riccardo/1_inDocker_2/data/Results/testDocker/setA.csv",separator=",", nCluster=5,clusterMethod=c("SEURAT"),seed=1111,projectName="testDocker",13) }