Gene Coexpression Network Construction
Hi! I would like to construct a gene coexpression network that I could use for further analysis, like community detection/detecion of functional gene modules in that network. Could anyone please share materials how to construct a gene coexpression network, some code examples maybe ? Thanks very much in advance.
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Kevin Blighe
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K. Bedejova •
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K. Bedejova •
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Hi K. Bedejova, you should check the established packages for this such as WGCNA and then ask specifically for help once you get stuck. People are typically reluctant to provide step-by-setp help if you have not invested any effort yourself.
Another one (not published): Network plot from expression data in R using igraph
Kevin
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As ATPoint mentioned you should first look into established packages. They usually have a well explained tutorial. Apart from that a simple Google search can bring out several other tutorials. One such is Step-by-Step Construction of Gene Co-expression Networks from High-Throughput Arabidopsis RNA Sequencing Data.