HVG and variation coefficient
0
1
Entering edit mode
5.1 years ago
SeaStar ▴ 50

Hi, I'm looking for highly variable genes from a data set. I have calculated the coefficient of variation of the expressed genes of my dataset and inserted them in a histogram graph. Now I should select only the highly variable genes. Should I select genes with a coefficient of variation >1, or how? thank you for your help,

regards

rwnms= rowMeans(RPKMtable)
var= apply(RPKMtable,1,var)
cv2 <- var/rwnms^2

hist(log10(cv2),40, col = "tomato", xlab = "coefficient of variation in Log10 scale", main =" Histogram of cv2"  )

enter image description here

gene dataset analysis • 955 views
ADD COMMENT

Login before adding your answer.

Traffic: 2123 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