How can I build a ranks matrix on pre calculated fold changes with RankProd?
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Entering edit mode
6.1 years ago
vasilislenis ▴ 160

Hello,

Initially, I would like to apologize in advance in case that my question is naive. Here is the thing. I would like to apply a meta-analysis on different gene expression studies based on ranks. I have found the RankProd library that I would like to use, but the problem is that I want to use only the rank indexing part, avoiding the calculation of the FC.

The reason for this is that I already have the FC for the genes from different studies.

So, I was thinking if there is a way to generate a matrix of ranks based on the FC for each study and after that based on these matrices to do the meta-analysis.

Is it possible?

Thank you very much in advance, Vasilis.

R Gene expressions RankProd Bioconductor • 1.0k views
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Entering edit mode
4.0 years ago

I think RankerGUI can help. Please check the first module. http://watson.na.icar.cnr.it/rankergui/index.php

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