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Inquiry about topology structure and natural connetivity of every single sample network #3
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Hi! Thank you for your message. Please find my replies below.
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Thanks for your reply! However I am still confused about the response to the question 3. Does it mean the cormat object generated after lioness(dat, netFun) was a weighted correlation matrix? Could you explain more about "threshold the networks"? |
Thanks for your message. The output of LIONESS depends on the input network reconstruction algorithm. As this package was designed to apply LIONESS to Pearson correlation networks, the output of the default netFun() is based on an aggregate network estimated with Pearson correlation. The edge weights in each single-sample network can be interpreted as the contribution to that aggregate network. Please refer to the original LIONESS publication for more information on how LIONESS works and how it can be applied to other algorithms, DOI: 10.1016/j.isci.2019.03.021. As this is not a bug in the code, but rather a question on the methodology, I am closing this issue. Feel free to contact me here should you have any remaining questions: https://www.kuijjerlab.org/contact/ |
Thanks for your kind reply! I would contact you by the website~ |
Hello! I am working on a projet which requires to construct single sample network for each participants. Lucky to find this package! However, I came across some issues. Wish you could help!
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