From Genome Analysis Wiki
Jump to navigationJump to search
1,444 bytes removed
, 01:29, 16 February 2012
| Line 213: |
Line 213: |
| | | | |
| | Here we show qplot can be applied in various sequencing scenarios. Also users can customize statistics generated by qplot to their needs. | | Here we show qplot can be applied in various sequencing scenarios. Also users can customize statistics generated by qplot to their needs. |
| − |
| |
| − | * Whole genome sequencing with more than one lane (Summary statistics)
| |
| − |
| |
| − | TotalReads(e6) 72.94 64.52 74.87 62.25 67.21
| |
| − | MappingRate(%) 97.62 97.51 97.75 97.52 97.35
| |
| − | MapRate_MQpass(%) 97.62 97.51 97.75 97.52 97.35
| |
| − | TargetMapping(%) 45.53 45.51 46.39 45.81 46.23
| |
| − | ZeroMapQual(%) 11.52 11.64 11.77 10.97 11.14
| |
| − | MapQual<10(%) 11.91 12.03 12.17 11.34 11.52
| |
| − | PairedReads(%) 100.00 100.00 100.00 100.00 100.00
| |
| − | ProperPaired(%) 96.14 96.10 96.34 95.60 95.91
| |
| − | MappedBases(e9) 2.11 1.87 2.20 1.82 1.97
| |
| − | Q20Bases(e9) 2.05 1.81 2.13 1.76 1.91
| |
| − | Q20BasesPct(%) 97.12 96.98 96.75 96.90 96.91
| |
| − | MeanDepth 35.08 31.05 36.55 30.30 32.82
| |
| − | GenomeCover(%) 2.10 2.10 2.10 2.09 2.10
| |
| − | EPS_MSE 8.89 6.88 8.50 13.32 6.86
| |
| − | EPS_Cycle_Mean 26.04 25.88 25.86 26.12 25.77
| |
| − | GCBiasMSE 0.04 0.05 0.04 0.07 0.04
| |
| − | ISize_mode 250 250 249 210 250
| |
| − | ISize_medium 271 270 270 260 270
| |
| − | DupRate(%) 3.50 3.79 3.27 4.51 3.56
| |
| − | QCFailRate(%) 0.00 0.00 0.00 0.00 0.00
| |
| − | BaseComp_A(%) 26.3 26.4 26.3 26.8 26.3
| |
| − | BaseComp_C(%) 23.7 23.6 23.7 23.2 23.7
| |
| − | BaseComp_G(%) 23.2 23.0 23.2 22.7 23.1
| |
| − | BaseComp_T(%) 26.8 27.1 26.8 27.3 26.9
| |
| − | BaseComp_O(%) 0.0 0.0 0.0 0.0 0.0
| |
| | | | |
| | * Whole genome sequencing with 24-multiplexing | | * Whole genome sequencing with 24-multiplexing |
