correlation between PCGs and the neighboring lncRNAs using LINC
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@edoardobertolini-15135
Last seen 2.4 years ago
United States

Hello!

I'm trying to correlate the expression of PCGs and the adjacent lncRNAs within the same tissue using TPM values. My input is a matrix 496 TPM of one column where the first 256 rows are lncRNAs and the remaining are PCGs. Gene names are specified as rownames.

What is the best approach? I tried the bioconductor package LINC with the function linc() giving as input the matrix here attached and the TRUE/FALSE vertor but I got an error

Thanks 

Ed

 

This is the input matrix:

str(input)

 num [1:496, 1] 15.4 7.6 50.9 24.9 17.6 ...
 - attr(*, "dimnames")=List of 2
  ..$ : chr [1:496] "MSTRG.2537.1" "MSTRG.11169.1" "MSTRG.27321.1" "MSTRG.13970.1" ...
  ..$ : chr "V1"

coexpression linc LINC package • 704 views
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