Significance clustering

Author:

Martin Rosvall

For contact information, see http://www.mapequation.org/about

Getting started:

In a terminal with the GNU Compiler Collection installed, just run 'make' in the current directory to compile the code with the included Makefile.

Call: ./sigclu [-s ] [-c ] [-w ] partitionsfile signodeoutfile sigmoduleoutfile seed: Any positive integer. confidencelevel: The confidence as a fraction, default is 0.95. partitionsfile: Each column represents a partition, the first for the raw partition and the remaining for bootstrap partitions. Row number corresponds to node id. nodeoutfile: 1 or 0 if a node does or does not belong to the significant core of its module. moduleoutfile: moduleId1 moduleId2 means that the significant core of moduleId1 cooccurs with moduleId2 more than a fraction 1 - conf of the samples. weightsfile: One column for weights of each node. Row number corresponds to node id.

Example:

./sigclu -s 34 -c 0.95 -w weightsfilesample.txt partitionsfilesample.txt signodeoutfilesample.txt sigmoduleoutfilesample.txt

partitionsfilesample.txt 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 2 1 2 1 2 1 2 1 2 2 2 2 1 2 1 2 1 2 1 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 2 3 2 2 2 2 2 2 2 2 2 2 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3 3

weightsfilesample.txt 1 1 2 2 3 3 4 4 5

signodeoutfilesample.txt

First column: 1 in significant core, 0 otherwise. Second column: the relative co-clustering with significant core nodes over all bootstrap clusterings

Significant SignificantScore 0 0.4 0 0.4 1 1 0 0.6 1 1 1 1 0 0 1 1 1 1

sigmoduleoutfilesample.txt

moduleId1 moduleId2 means that the significant core of moduleId1 cooccurs with moduleId2 more than a fraction 1 - conf of the samples.

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