Sex Classifier algorithm (SAM/BAM)

1) Calculate the per-contig Depth as described in Coverage and Depth.

2) Calculate X_Depth / Y_Depth and chr1_Depth / X_Depth.

3) Decision matrix:

Definitions:

• Depth is defined here Coverage and Depth.

• Chromosome X is the contig named “X”, “chrX” or “ChrX”, and similarly for Y and chr1.