Dream3
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It is a package we developed for the DREAM3 in silico gene regulatory network reconstruction competition ([http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0008121 Yip et al., PLoS ONE 5(1):e8121, 2010]). To run the program, [http://http://www.oracle.com/technetwork/java/javase/downloads/index.html Java] and [http://ant.apache.org/ Apache Ant] need to be installed. Then unzip all the files into a directory, and use a command window to type "ant runall3" at the directory to run the program. In order to keep the package size small, we have only included the DREAM3 size-10 networks. The size-50 and size-100 networks can be downloaded from the [http://wiki.c2b2.columbia.edu/dream/index.php/D3c4 DREAM3 web site]. | It is a package we developed for the DREAM3 in silico gene regulatory network reconstruction competition ([http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0008121 Yip et al., PLoS ONE 5(1):e8121, 2010]). To run the program, [http://http://www.oracle.com/technetwork/java/javase/downloads/index.html Java] and [http://ant.apache.org/ Apache Ant] need to be installed. Then unzip all the files into a directory, and use a command window to type "ant runall3" at the directory to run the program. In order to keep the package size small, we have only included the DREAM3 size-10 networks. The size-50 and size-100 networks can be downloaded from the [http://wiki.c2b2.columbia.edu/dream/index.php/D3c4 DREAM3 web site]. | ||
| - | + | The program was developed mainly for DREAM3, and was not written in a very generic way. To run it on other datasets or to use to for some other tasks, the source code needs to be modified. | |
Revision as of 12:39, 21 November 2011
It is a package we developed for the DREAM3 in silico gene regulatory network reconstruction competition (Yip et al., PLoS ONE 5(1):e8121, 2010). To run the program, Java and Apache Ant need to be installed. Then unzip all the files into a directory, and use a command window to type "ant runall3" at the directory to run the program. In order to keep the package size small, we have only included the DREAM3 size-10 networks. The size-50 and size-100 networks can be downloaded from the DREAM3 web site.
The program was developed mainly for DREAM3, and was not written in a very generic way. To run it on other datasets or to use to for some other tasks, the source code needs to be modified.
