Description Usage Arguments Value
It calls functions generate_seqdata_1var
,seq_eg_freq
,rbindlist
to generate sequence data,
return a list including expected genotype probability (exp_prob, leng=nsample), population fequency (pop_frq,leng=3),true genotype(geno),concatenated error rate(verror) and read depth(vrdepth)
1 2 | seqdata_nvar(nsnp, ncase, ncont, mdcase, sddcase, mdcont, sddcont, mecase,
sdecase, mecont, sdecont, mmafcase, mmafcont)
|
nsnp, |
number of variants (integer) >0 |
ncase, |
number of cases (integer) >0 |
ncont, |
number of controls (integer) >0 |
mdcase, |
average read depth in cases (double) >0 |
sddcase, |
standard deviation of read depth in cases (double) >0 |
mdcont, |
average read depth in controls (double) >0 |
sddcont, |
standard deviation of read depth in controls (double) >0 |
mecase, |
average error rate, probability that sequence call is wrong (double) for case>0 |
sdecase, |
standard deviation of error rate (double) for case >0 |
mecont, |
average error rate, probability that sequence call is wrong (double) for cont >0 |
sdecont, |
standard deviation of error rate (double) for cont >0 |
mmafcase, |
a vector of MAF for nsnp variants in cases, HWE is assumed >0 |
mmafcont, |
a vector of MAF for nsnp variants in controls |
a list including expected genotype probability (exp_prob, leng=nsample), population fequency (pop_frq,leng=3),true genotype(geno),and read depth(vrdepth), and ncase and ncont
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