Heatmap for plink output
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Entering edit mode
9.7 years ago
zhwjmch ▴ 170

Hello, I have output from plink ld analysis, the format is like:

CHR_A         BP_A       SNP_A  CHR_B         BP_B       SNP_B           R2
     1    224104510  rs10915886      1    224117126  rs10915888            1
     1    224104510  rs10915886      1    224168791  rs12078868     0.858443
     1    224111389   rs9919303      1    224122218   rs2292564     0.884444
     1    224117126  rs10915888      1    224168791  rs12078868     0.858443

Anyone knows how to generate heatmap for this output?

I have tried LDheatmap, but that software requires genotype data,which I have hard time to convert from plink results.

Thanks in advance.

SNP R • 2.3k views
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