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CoCoJIM - CoCoNAD with Item Cover Similarity

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cocojim.pdf (2585 kb) CoCoJIM result diagrams
cocojim.zip (55 kb) cocojim.tar.gz (48 kb) scripts and other source files

Description

The document cocojim.pdf contains the result diagrams for the complete set of experiments with CoCoNAD (Continuous-time Closed Neuron Assembly Detection) based on item cover similarity computations with the (generalized) Jaccard index and other measures (CoCoJIM for short, where JIM refers to Jaccard Item set Mining). Only few of these diagrams are contained in a paper that is currently under review, due to a lack of space. For the theory underlying the methods, please consult the paper, to which (after a possible acceptance) a link will be made available here.

The archives cocojim.{zip,tar.gz} contain scripts and other source files, with which the experiments were conducted and the document with the result diagrams was created.

Note that the scripts etc. were developed on/for a GNU/Linux system (Ubuntu 15.10) and thus are directly executable on such a system or a similar one (that is, some other GNU/Linux distribution). Although at least most of the Python scripts should also be working on a Windows system (with the possible exception of the parallelization scripts), most of the other scripts (like the run script, which is the main control script, and the makefile, which controls generating the diagrams from the result data) may need porting to batch files or something similar.

On a GNU/Linux system, the following software needs to be installed to run the experiments:

On such a system the experiments can be run by simply calling the main script run (in the directory cocojim) on the command line, which does everything. The execution of the experiments exploits 4-fold parallelization, thus making full use of the quadcore processors basically all modern computers are equipped with. The progress of the experiments can be followed on the command line, to which regular progress messages are written. Once all experiments are completed (which, even on a modern computer system, can take several hours, mainly because of the huge number of individual experimental runs, namely in the hundreds of thousands), the result diagrams are created and compiled into the final document, which is also directly available above.

References