What does the size of mafR which in cncf explain?

[Jingjiao-ma]

hi, In the output cncf file, the column mafR , what does the size of the number mean？Is there a relationship between the size of the number and the imbalance of allele？

thank you

[veseshan]

mafR is the method of moments estimate of the square of log-odds-ratio from the 2x2 table obtained from tumor-normal by ref-alt cross-tabulation. So close to zero means the alleles are in balance. For total and minor copy numbers of (tcn, lcn) at cellular fraction cf the odds-ratio is {1+(tcn-lcn-1)*cf}/{1+(lcn-1)*cf}.