48 lines
1.3 KiB
Markdown
48 lines
1.3 KiB
Markdown
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# 各种统计信息的计算，metrics文件中记录的信息
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- htsjdk.samtools.metrics.StringHeader
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- 命令行参数
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- 执行命令的时间
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- METRICS CLASS picard.sam.DuplicationMetrics
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```
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LIBRARY 样本ID(建库制备的样本id)
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UNPAIRED_READS_EXAMINED 未匹配的reads数量
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READ_PAIRS_EXAMINED 匹配的reads数量
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SECONDARY_OR_SUPPLEMENTARY_RDS 非主要匹配的reads个数
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UNMAPPED_READS 未匹配的reads个数
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UNPAIRED_READ_DUPLICATES 未匹配的reads，冗余的个数
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READ_PAIR_DUPLICATES 匹配的reads，冗余个数
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READ_PAIR_OPTICAL_DUPLICATES 匹配的reads，光学原因造成的冗余个数
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PERCENT_DUPLICATION 冗余reads占比
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ESTIMATED_LIBRARY_SIZE 估计的样本reads总量
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normal 1205 498430 729 1205 763 117212 6877 0.235643 924111
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```
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- HISTOGRAM java.lang.Double
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```
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BIN 坐标值
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CoverageMult
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all_sets
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optical_sets
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non_optical_sets
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1.0 1.010558 287416 0 291706
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2.0 1.599836 72561 6664 70093
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3.0 1.943455 15542 105 14299
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4.0 2.143827 3274 1 2831
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5.0 2.260667 708 0 607
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6.0 2.3288 136 0 114
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7.0 2.368529 28 0 17
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8.0 2.391696 7 0 5
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9.0 2.405205 2 0 2
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10.0 2.413082 0 0 0
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11.0 2.417676 0 0 0
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12.0 2.420354 0 0 0
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13.0 2.421916 0 0 0
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14.0 2.422827 0 0 0
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15.0 2.423358 0 0 0
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...
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...
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98.0 2.424101 0 0 0
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99.0 2.424101 0 0 0
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100.0 2.424101 0 0 0
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```
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