Nothing
# created on June 21, 2020
# (1) write a wrapper function
# (2) rename input parameters
# (3) remove powerEQTL.ANOVA2 related functions
#
# created on Dec. 11, 2016
# (1) allow mu2-mu1 not equal to mu3-mu2,
# where mu1 is the mean expression level for mutation homozygote,
# mu2 is the mean expression level for heterozygote,
# and mu3 is the mean expression level for wildtype homozygote
#
# created on Dec. 8, 2016
# (1) sample size calculation for eQTL analysis based on ANOVA or simple linear regression
#
# MAF - minor allele frequency
# FWER - family-wise type I error rate
# nTests - number of tests
# n - total number of subjects
# sigma - standard deviation of gene expression levels
# (assume each group of subjects has the same mystddev)
# deltaVec - mean difference of gene expression levels between groups
# deltaVec[1]=mu1-mu2 and deltaVec[2]=mu3-mu2
# group 1 is mutation homozygotes
# group 2 is heterozygotes
# group 3 is wildtype homozygotes
# squared difference between estimated power and desired power
diffPower4ss.ANOVA=function(n,
MAF=0.1,
deltaVec=c(-0.13,0.13),
power=0.8,
sigma=0.13,
FWER=0.05,
nTests=200000)
{
est.power=powerEQTL.ANOVA.default(MAF=MAF,
n=n,
sigma=sigma,
deltaVec=deltaVec,
FWER=FWER,
nTests=nTests)
diff=est.power - power
return(diff)
}
# MAF - minor allele frequency
# typeI - type I error rate
# nTests - number of tests
# mypower - desired power
# sigma - standard deviation of gene expression levels
# (assume each group of subjects has the same mystddev)
# deltaVec - mean difference of gene expression levels between groups
# deltaVec[1]=mu2-mu1 and deltaVec[2]=mu3-mu2
ssEQTL.ANOVA=function(MAF,
deltaVec=c(-0.13,0.13),
power=0.8,
sigma=0.13,
FWER=0.05,
nTests=200000,
n.lower = 2.01,
n.upper = 1e+30)
{
res.root=uniroot(f=diffPower4ss.ANOVA,
interval = c(n.lower, n.upper),
MAF=MAF,
deltaVec=deltaVec,
power=power,
sigma=sigma,
FWER=FWER,
nTests=nTests
)
return(res.root$root)
}
Any scripts or data that you put into this service are public.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.