cluster3 - Online in the Cloud

PROGRAM:

NAME

cluster3 — Eisen-clustering of microarray data

SYNOPSIS

cluster3 [-f filename] [-l 0|1] [-u jobname] [-g [0..9]] [-e [0..9]] [-m [msca]] [-k
number] [-s 0|1] [-x number] [-y number]

OPTIONS

-h--help Show summary of options.

-f filename
file loding

-u jobname
Allows you to specify a different name for the output files (default is derived
from the input file name)

-l 0|1 Specifies whether to log-transform the data (default is 0, no log-transform)

-k number Specifies whether to run k-means clustering instead of hierarchical clustering,
and the number of clusters k to use (default: 0)

-x number Specifies the horizontal dimension of the SOM grid (default: 2)

-y number Specifies the vertical dimension of the SOM grid (default: 1)

-s 0|1 Specifies whether to calculate an SOM instead of hierarchical clustering
(default: 0)

-v --version
Show version of program.

-g [0..9] Specifies the distance measure for gene clustering 0: No gene clustering 1:
Uncentered correlation 2: Pearson correlation 3: Uncentered correlation, absolute value 4:
Pearson correlation, absolute value 5: Spearman's rank correlation 6: Kendall's tau 7:
Euclidean distance 8: Harmonically summed Euclidean distance 9: City-block distance
(default: 1)

-e [0..9] Specifies the distance measure for microarray clustering 0: No clustering 1:
Uncentered correlation 2: Pearson correlation 3: Uncentered correlation, absolute value 4:
Pearson correlation, absolute value 5: Spearman's rank correlation 6: Kendall's tau 7:
Euclidean distance 8: Harmonically summed Euclidean distance 9: City-block distance
(default: 0)

-m [msca] Specifies which hierarchical clustering method to use m: Pairwise complete-
linkage s: Pairwise single-linkage c: Pairwise centroid-linkage a: Pairwise average-
linkage (default: m)

Use cluster3 online using onworks.net services