Table 1 Algorithms available to run in Auto-SAM

GFlasso [13]

SAM

G, P, Ep

G-P association

0 05:05:50

1 16:17:45

2 06:43:56

17

MPGL [11]

SAM

G, P, Pop

G-P association

2 09:07:47

-

3 11:09:46

3

TreeLasso [10]

SAM

G, P, Ep

G-P association

0 01:12:03

0 12:53:52

0 05:08:42

15

AMTL [12]

SAM

G, P, Fg

G-P association

-

-

1 20:35:47

8

gGFlasso [14]

SAM

T, Et, P, Ep, G/T assoc

T-P association

N/A

0 01:54:04

N/A

19

Wald Test [15]

AM

G, P

G-P association

0 00:23:29

0 09:51:23

0 00:54:04

5

Wilcoxon Sum-rank test [8]

AM

G, P

G-P association

0 00:10:21

0 01:05:51

0 00:14:32

4

Lasso [16]

AM

G, P

G-P association

0 00:59:21

0 08:22:42

0 04:07:53

6

association by population [17]

AM

G, P, Pop

G-P association

0 00:57:24

2 19:02:46

1 03:00:44

5

Correlation

network

P

Ep

0 00:01:50

0 00:06:05

0 00:09:29

3

Glasso [18]

network

P

Ep

0 00:07:31

0 01:19:37

0 01:51:24

10

Scale-free network [19]

network

P

Ep

0 00:03:11

0 00:41:23

0 00:41:08

6

Hierarchical clustering

tree

P

tree

0 00:43:32

0 01:27:32

0 01:05:04

3

Structure [20]

population

G

Pop

0 13:30:32

0 13:30:32

0 00:41:54

4

Gene module discovery [8]

Network analysis

Ep

phenotype clusters

N/A

0 12:29:24

0 01:03:22

4