Hi there,
I used genome MuSiC to measure the significance of mutated genes. Everything works fine, but the most significant hits do not have p-value, as it is simply written as "0".
For eg: Gene Indels SNVs Tot Muts Covd Bps Muts pMbp P-value FCPT P-value LRT P-value CT FDR FCPT FDR LRT FDR CT
TP53 0 17 17 20372 834.48 0 0 0 0 0 0
BAP1 3 3 6 32323 185.63 2.88295257655502e-06 1.00335850738986e-10 3.54967231991123e-10 0.030926873764994 1.07635283880247e-06 3.80791098118477e-06
CDC27 0 4 4 40136 99.66 0.000138356655441818 1.08419471067656e-07 4.851087615328e-08 0.989480680834735 0.00058153493793914 0.000346933615956207
Any suggestions on how to extract the p-value to plot. thanks !
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Chirag Nepal
You're limited by the ability of your system/language to support very small floating point numbers. At some point, it just throws up it's hands and says "it's essentially zero".
That is what i thought. Do you have any suggestions on how to extract those p-values, in case of genome MuSic.
For eg: in R, p-value < 2E16 are generally given 0, but there is way to get the p-value. So wondering if i can do same thing in Music.
Sorry, I don't know that.
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