User: 2323982403

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232398240320
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Posts by 2323982403

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consensus module relationship
... Consensus wgcna is aimed to generate common networks across different data sets. When we identified consensus modules, how to clarify the relationships between these consensus modules. One method I've known is to calculate eigengenes and their correlations in each data set, and then for each data se ...
wgcna consensus wgcna package written 4 hours ago by 232398240320
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Comment: C: SampleNetwork in WGCNA
... Another question concerned SampleNetwork. Should I apply SampleNetwork to unnormalized data or normalized data. As mentioned in the tutorial: "To derive maximum utility from the function, we prefer to apply SampleNetwork to gene expression data that have been minimally processed in a consistent fas ...
written 5 weeks ago by 232398240320
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SampleNetwork in WGCNA
... The paper "Oldham, M.C., P. Langfelder and S. Horvath, Network methods for describing sample relationships in genomic datasets: application to Huntington's disease. BMC Syst Biol, 2012. 6: p. 63." Provided a method called SampleNetwork to identify sample outliers, but the URL doesn't work anymore, t ...
wgcna wgcna package written 6 weeks ago by 232398240320
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WGCNA multiple data sets overlapping analysis
... I was analyzing three data sets using wgcna independently.  Each data set gave me several modules and I want to see their overlapping. With the help of the tutorial "Consensus-RelateToFemMods", I could modify some code to generate a overlapping heatmap containing the overlapped counts and p values. ...
wgcna overlap multiple data sets written 16 months ago by 232398240320 • updated 16 months ago by Peter Langfelder1.5k
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WGCNA export to cytoscape
...     I'm using the exportNetworkToCytoscape function to export the module of interest to cytoscape. The tutorial first calculate TOM, select node in the network, choosing a threshold of the edge and then export to cytoscape. An edge can exists when the weight between two nodes is above the threshold. ...
wgcna cytoscape written 16 months ago by 232398240320 • updated 8 months ago by harelarik0
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WGCNA with paired samples
... Dear all, I'm analyzing microarray data using wgcna. I have 36 paired samples from 18 persons.Each person has two samples, one before a 6 week endurance training program,and one after the training program. We're investigating the exercise effects on gene expression using wgcna. We want to find modu ...
wgcna paired samples exercise written 2.1 years ago by 232398240320 • updated 2.1 years ago by Peter Langfelder1.5k

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Popular Question 16 months ago, created a question with more than 1,000 views. For WGCNA export to cytoscape

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