Table 2 Number of variants as outputs from different filtering stages

Stage 1

22,626 variants (in 14,754 genes)

Stage 2

Class Unknown

Class 3

Class 3 + 

Class 4&5

Class1&2

Class 2 + 

20,541 variants

(14,043 genes)

752 variants

(849^a genes)

41 variants

(37 genes)

68 variants

(91^a genes)

897 variants

(1013^a genes)

340 variants

(378^a genes)

Stage 3

3.0

14,467 variants

(11,222 genes)

309 variants

(382^a genes)

16 variant

(5 genes)

No Stage 3 filtering in these classes (4&5, 1&2, 2 +)

3.1

81 variants

(78 genes)

24 variants

(24 genes)

22 variants

(21 genes)

3.2

3.2.1

90 variants

(85 genes)

0

1 variant

(1 gene)

3.2.2

58 variants

(43 genes)

2 variants

(2 genes)

0