lemon-tree 3.1.1
:: DESCRIPTION
LemonTree (former LeMoNe) is an algorithm to infer a module network from biological data. It can integrate heterogeneous data types such as expression data, copy number, microRNA, epigenetic profiles.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
- Linux/windows/MacOsX
- Java
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Integrative multi-omics module network inference with Lemon-Tree.
Bonnet E, Calzone L, Michoel T.
PLoS Comput Biol. 2015 Feb 13;11(2):e1003983. doi: 10.1371/journal.pcbi.1003983.
Transcription regulatory networks in Caenorhabditis elegans inferred through reverse-engineering of gene expression profiles constitute biological hypotheses for metazoan development.
Vermeirssen V, Joshi A, Michoel T, Bonnet E, Casneuf T, Van de Peer Y.
Mol Biosyst. 2009 Dec;5(12):1817-30. Epub 2009 Jul 17.
Hello,
I have a question regarding the parameters that can be modified during the -task tight_clusters . I would like to modify the minimum size o the clusters with the parameter min_clust_size. I have added the parameter in the command line with the new value min_clust_size = 30 but depending where I locate the parameter it either generate an error or it is simply ignored when executing the task. Could you provide an written example how this parameter must be entered in the command liner?
thank you
Quentin
Please contact with Eric Bonnet (http://eric.d.bonnet.free.fr/)