NGS Pipeline Atlas - Cohort Summary Report
==========================================

Samples attempted: 33
Samples passed QC gates: 27
Samples stopped at QC gates: 6
  STOPPED BADINPUT01: mean_coverage=0.01x < gate 10.00x
  STOPPED SRR1121841: mean_coverage=8.82x < gate 10.00x
  STOPPED SRR1121895: mean_coverage=9.03x < gate 10.00x
  STOPPED SRR1121918: mean_coverage=9.33x < gate 10.00x
  STOPPED SRR1121923: mean_coverage=9.70x < gate 10.00x
  STOPPED SRR1121929: mean_coverage=9.99x < gate 10.00x
Total variant records (passed samples): 130614
Unique variant sites across cohort: 81810

Per-sample results
------------------
sample	gate_status	mean_coverage_x	pct_mapped	q30_pct	variants_called
BADINPUT01	STOPPED	0.01	97.42	96.00	0
SRR1121840	PASS	10.30	98.36	96.00	7689
SRR1121841	STOPPED	8.82	98.16	96.00	0
SRR1121843	PASS	17.85	98.53	96.00	3259
SRR1121846	PASS	15.21	98.54	96.00	4022
SRR1121847	PASS	14.01	98.44	96.00	4379
SRR1121858	PASS	12.61	98.69	96.00	5254
SRR1121866	PASS	17.16	98.55	96.00	3454
SRR1121867	PASS	13.79	98.56	96.00	4428
SRR1121870	PASS	13.27	98.64	96.00	4765
SRR1121877	PASS	14.63	98.40	96.00	4175
SRR1121882	PASS	11.38	98.69	96.00	6753
SRR1121884	PASS	18.16	98.51	96.00	3434
SRR1121885	PASS	14.61	98.51	96.00	4089
SRR1121886	PASS	16.80	98.30	96.00	3583
SRR1121888	PASS	12.62	98.60	96.00	5252
SRR1121892	PASS	14.68	98.50	96.00	4076
SRR1121895	STOPPED	9.03	98.03	96.00	0
SRR1121896	PASS	18.99	98.35	96.00	3399
SRR1121898	PASS	16.53	98.37	96.00	3551
SRR1121901	PASS	17.08	98.40	96.00	3475
SRR1121904	PASS	16.31	98.38	96.00	3590
SRR1121906	PASS	11.16	98.70	96.00	6644
SRR1121907	PASS	11.06	97.76	96.00	6982
SRR1121912	PASS	13.03	98.60	96.00	5042
SRR1121914	PASS	10.40	98.39	96.00	7636
SRR1121916	PASS	14.35	98.44	96.00	4204
SRR1121918	STOPPED	9.33	97.59	96.00	0
SRR1121922	PASS	10.93	98.40	96.00	7014
SRR1121923	STOPPED	9.70	98.32	96.00	0
SRR1121925	PASS	13.68	98.52	96.00	4650
SRR1121926	PASS	11.88	98.53	96.00	5815
SRR1121929	STOPPED	9.99	98.60	96.00	0