Table 2.

The speed evaluation result of GeneFuse against FACTERA and DELLY. The file size in the first column is the sum of read1 and read2 base numbers. BWA-MEM was run with 4 threads, while GeneFuse was also run with 4 threads. The druggable targets can be found from the GeneFuse github repository.

File size (bases)	BWA MEM	Picard sort	FACTERA step	DELLY step	BWA+Picard+FACTERA	BWA+Picard+DELLY	GeneFuse with druggable targets
6.48 G	0:28:44	0:11:15	0:05:38	0:04:52	0:45:37	0:45:51	0:05:30
7.26 G	0:30:10	0:11:59	0:06:00	0:05:09	0:48:09	0:48:18	0:05:39
9.13 G	0:49:37	0:17:51	0:05:43	0:08:23	1:13:11	1:16:51	0:08:26
7.48 G	0:41:32	0:13:54	0:06:47	0:11:18	1:02:13	1:07:44	0:07:25
7.33 G	0:40:52	0:14:04	0:06:46	0:10:59	1:01:42	1:06:55	0:07:34
7.19 G	0:43:11	0:14:46	0:03:35	0:05:22	1:01:32	1:04:19	0:07:00
7.38 G	1:01:12	0:13:39	0:09:51	0:10:50	1:24:42	1:26:41	0:09:47
7.80 G	1:00:45	0:14:46	0:06:42	0:07:17	1:22:13	1:23:48	0:10:07
7.46 G	0:54:54	0:14:08	0:06:34	0:08:45	1:15:36	1:18:47	0:09:50
8.14 G	1:05:04	0:14:56	0:08:20	0:08:42	1:28:20	1:29:42	0:10:45
8.53 G	0:52:06	0:15:58	0:03:43	0:03:19	1:11:47	1:12:23	0:07:57
9.75 G	0:48:30	0:18:04	0:04:27	0:04:11	1:11:01	1:11:45	0:08:55
9.42 G	0:47:52	0:17:46	0:06:03	0:04:25	1:11:41	1:11:03	0:09:27