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This was requested by @steffenheyne. In short, it'd be nice if bamPEFragmentSize could completely replace picard CollectInsertSizeMetrics. That produces the following:
- MEDIAN_INSERT_SIZE
- MEDIAN_ABSOLUTE_DEVIATION
- MIN_INSERT_SIZE
- MAX_INSERT_SIZE
- MEAN_INSERT_SIZE
- STANDARD_DEVIATION
- READ_PAIRS
- WIDTH_OF_10_PERCENT
- WIDTH_OF_20_PERCENT
- WIDTH_OF_30_PERCENT
- WIDTH_OF_40_PERCENT
- WIDTH_OF_50_PERCENT
- WIDTH_OF_60_PERCENT
- WIDTH_OF_70_PERCENT
- WIDTH_OF_80_PERCENT
- WIDTH_OF_90_PERCENT
- WIDTH_OF_99_PERCENT
I'm going to skip PAIR_ORIENTATION, since basically everything will be FR these days. WIDTH_OF_50_PERCENT is of course the same as the median, no clue why both are present.