cluster3 — Eisen-clustering of microarray data
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]
-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) |
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-k number |
Specifies whether to run k-means clustering instead of hierarchical clustering, and the number of clusters k to use (default: 0) |
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-x number |
Specifies the horizontal dimension of the SOM grid (default: 2) |
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-y number |
Specifies the vertical dimension of the SOM grid (default: 1) |
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-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)
mapletree (1), smile (1).
This manual page was written by Steffen Moeller moeller AT pzr DOT uni-rostock DOT de for the Debian system (but may be used by others). Permission is granted to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by the Free Software Foundation.
On Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL.