how to perform pairwise correlation coefficent in r program for gene expression matrix
this is my data structure , columns are samples and rows are genes, i want to perform pearson correlation coeffienct b/w gene1&2, gene2&3,gene 3&4. i have total 108 genes from 57 samples
gene1 6.121202675 6.209983663 6.376870346 6.276983925
gene2 8.745523095 8.35388773 8.673598036 9.008937525
gene3 6.613542441 6.275194829 6.884437022 6.672146012
gene4 9.632601412 10.02780565 9.555238552 8.222576388
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Chirag Parsania
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rajasekargutha •
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rajasekargutha •
2 answers
help(cor), note that you'll need to transpose the matrix, since it compares columns.
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Devon Ryan
ggpairs(log2(data+0.01)) can give you nice representation of your data as well.
~Chirag.
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Chirag Parsania
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