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. 2019 Dec 30;4:50. Originally published 2019 Mar 11. [Version 2] doi: 10.12688/wellcomeopenres.15126.2

Table 1. Variant annotations and cutoff values used for SNPs identified using the low coverage data.

Annotation Description Cutoff value
INFO/DP Raw read depth >24,304
INFO/MQ Average mapping quality <34
INFO/MQ0F Fraction of MQ0 reads (smaller is better) >0.049737
INFO/HOB Bias in the number of HOMs number (smaller is better) >0.1643732
INFO/SGB Segregation based metric >2347.043
INFO/SGB Segregation based metric <-64440.286
QUAL Variant quality <20