create_Thetafile {RLMM} | R Documentation |
Assuming that the *.norm files are created, this step of the data analysis will calculate estimates of theta A and theta B values for each SNP and chip based on normalized probe intensity data from the *.norm files. The theta values are produced from fitting a probe-level additive model to the log2 A probe intensities and the B intensities separately.
create_Thetafile(probefiledir = getwd(), start = 1, end = -1, thetafile = "")
probefiledir |
Character string specifying the directory with the *.norm files (optional) |
start |
An integer value specifying which SNP number we should start at when calculating the theta values (optional) |
end |
An integer value specifying which SNP number we should stop at when calculating the theta values (optional) |
thetafile |
A character string specifying the name the theta file will be saved as (optional) |
Nusrat Rabbee <nrabbee@post.harvard.edu>, Gary Wong <wongg62@gmail.com>