Deleted:how find high correlated variables with a specific cutoff in R?
0
0
Entering edit mode
11 months ago
sata72 • 0

I have a list of genes with two parameters for each genes. I want to create table with "Pearson" correlation and p value. this is a example of the list and the numbers are random selected.

I want to perform a correlation analysis between meth (col1) and exp (col2) to find highly correlated and statistically significant genes.

Input:

list    meth1   meth2   meth3   meth4   meth5   meth6   meth7   meth8   meth9   meth10  exp1    exp2    exp3    exp4    exp5    exp6    exp7    exp8    exp9    exp10
gene 1  1   1   1   1   1   1   1   1   1   1   7.2 7.2 7.2 7.2 7.2 7.2 7.2 7.2 7.2 7.2
gene 2  0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 7.5 7.5 7.5 7.5 7.5 7.5 7.5 7.5 7.5 7.5
gene 3  0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 5   5   5   5   5   5   5   5   5   5
gene 4  0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 4   4   4   4   4   4   4   4   4   4
gene 5  0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 3   3   3   3   3   3   3   3   3   3
gene 6  0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 2   2   2   2   2   2   2   2   2   2
..
..

Expected output:

list    meth1   meth2   meth3   meth4   meth5   meth6   meth7   meth8   meth9   meth10  exp1    exp2    exp3    exp4    exp5    exp6    exp7    exp8    exp9    exp10   Correlation value  Pvalue 
gene 1  1   1   1   1   1   1   1   1   1   1   7.2 7.2 7.2 7.2 7.2 7.2 7.2 7.2 7.2 7.2   0.3  0.05
gene 2  0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 7.5 7.5 7.5 7.5 7.5 7.5 7.5 7.5 7.5 7.5   0.8  0.04
gene 3  0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 0.5 5   5   5   5   5   5   5   5   5   5     0.9  0.06
gene 4  0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 0.6 4   4   4   4   4   4   4   4   4   4     0.2  0.01
gene 5  0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 0.7 3   3   3   3   3   3   3   3   3   3    -0.4  0.002
gene 6  0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 2   2   2   2   2   2   2   2   2   2     0.2  0.05
..
..
Pearson-correlation r • 658 views
ADD COMMENT
This thread is not open. No new answers may be added
Traffic: 2607 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6