Modeling the next generation sequencing sample processing pipeline for the purposes of classification

BMC Bioinformatics

Table 5 Percentage of the NGS-reads experiments recovering certain number of global markers after feature selection for COV=0.1 and ρ =0 . 4

NGS-reads	Sample	<8	8	9	10
range	size	markers	markers	markers	markers
	n=60	99.62	0.36	0.02	0.00
1K-50K	n=120	70.26	20.64	8.02	1.08
	n=180	30.16	32.46	29.80	7.58
	n=60	78.67	15.75	5.08	0.50
50K-100K (SAGE-tags)	n=120	10.75	24.12	43.45	18.68
	n=180	1.01	8.32	40.50	50.17
	n=60	44.64	31.70	20.00	3.66
250K-300K	n=120	2.60	13.76	44.24	39.40
	n=180	0.10	2.08	23.84	73.98
	n=60	37.16	32.54	24.48	5.82
500K-550K	n=120	1.92	11.42	42.50	44.16
	n=180	0.06	1.80	21.98	76.16
	n=60	32.36	31.70	28.84	7.10
5M-5M+50K	n=120	1.46	9.38	41.20	47.96
	n=180	0.08	1.68	20.06	78.18
	n=60	33.04	31.94	27.78	7.24
10M-10M+50K	n=120	1.52	9.34	41.32	47.82
	n=180	0.10	1.48	19.44	78.98
	n=60	31.92	32.64	28.00	7.44
15M-15M+50K	n=120	1.40	8.36	41.90	48.34
	n=180	0.08	1.42	21.20	77.30
	n=60	31.82	32.04	28.36	7.78
25M-25M+50K	n=120	1.48	9.32	40.86	48.34
	n=180	0.02	1.38	20.40	78.20
	n=60	32.06	32.44	27.88	7.62
32.5M-32.5M+50K	n=120	1.42	9.44	40.50	48.64
	n=180	0.06	1.32	19.90	78.72
	n=60	33.18	31.84	27.20	7.78
40M-40M+50K	n=120	1.48	9.38	41.04	48.10
	n=180	0.12	1.60	20.12	78.16
	n=60	31.90	31.94	29.42	6.74
50M-50M+50K	n=120	1.54	8.76	41.08	48.62
	n=180	0.02	1.48	20.72	77.78
	n=60	32.58	31.10	28.38	7.94
75M-75M+50K	n=120	1.22	8.78	39.94	50.06
	n=180	0.02	1.34	19.84	78.80
	n=60	31.40	32.66	28.90	7.04
100M-100M+50K	n=120	1.50	9.08	40.38	49.04
	n=180	0.08	1.36	20.02	78.54

ISSN: 1471-2105