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

BMC Bioinformatics

Table 6 Percentage of the NGS-reads experiments recovering certain number of global markers after feature selection for COV=0.1 and ρ =0 . 8

NGS-reads	Sample	<8	8	9	10
range	size	markers	markers	markers	markers
	n=60	99.40	0.52	0.08	0.00
1K-50K	n=120	68.14	19.18	10.92	1.76
	n=180	29.54	28.16	30.44	11.86
	n=60	73.14	16.55	8.57	1.74
50K-100K (SAGE-tags)	n=120	14.16	21.13	36.43	28.28
	n=180	2.52	8.03	30.16	59.29
	n=60	44.26	21.56	23.10	11.08
250K-300K	n=120	5.54	10.34	29.88	54.24
	n=180	0.84	3.06	15.92	80.18
	n=60	36.74	22.00	26.16	15.10
500K-550K	n=120	4.74	9.10	28.14	58.02
	n=180	0.56	2.66	13.68	83.10
	n=60	32.76	20.90	26.96	19.38
5M-5M+50K	n=120	4.38	7.30	24.74	63.58
	n=180	0.62	2.08	11.92	85.38
	n=60	32.56	20.06	26.84	20.54
10M-10M+50K	n=120	4.38	8.72	23.72	63.18
	n=180	0.70	2.18	11.62	85.50
	n=60	31.90	21.54	27.70	18.86
15M-15M+50K	n=120	4.46	8.16	23.28	64.10
	n=180	0.76	2.12	12.02	85.10
	n=60	32.56	21.02	26.90	19.52
25M-25M+50K	n=120	3.96	8.44	24.30	63.30
	n=180	0.54	2.32	11.86	85.28
	n=60	33.00	21.30	26.74	18.96
32.5M-32.5M+50K	n=120	4.18	7.20	24.10	64.52
	n=180	0.64	1.98	10.94	86.44
	n=60	32.94	21.00	27.26	18.80
40M-40M+50K	n=120	4.36	7.48	24.22	63.94
	n=180	0.80	2.24	11.16	85.80
	n=60	32.70	20.64	26.70	19.96
50M-50M+50K	n=120	4.14	8.52	23.42	63.92
	n=180	0.74	2.32	11.84	85.10
	n=60	33.38	20.34	27.02	19.26
75M-75M+50K	n=120	4.48	7.90	24.26	63.36
	n=180	0.60	1.92	11.00	86.48
	n=60	32.70	21.34	26.86	19.10
100M-100M+50K	n=120	4.54	7.88	23.64	63.94
	n=180	0.80	2.58	11.64	84.98

ISSN: 1471-2105