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Why does collectInsertSizeMetrics sometimes display a dual output?
I noticed that the output of CollectInsertSizeMetrics displays 2 rows in its output for some samples.
The samples come from bone marrow cells of patiens with haematological malignancies.
I tested the samples using a local Galaxy instance. The samples were trimmed using Trimmomatic, aligned with TopHat2 and reordered with the picard tool "ReorderSam".
The Version of "CollectInsertSizeMetrics" is 1.136.0
The two rows differ in all collumns of the output (eg. MEDIAN_INSERT_SIZE: 233 vs. 3815, READ_PAIRS: 22602994 vs. 2992312, PAIR_ORIENTATION: FR vs. RF and so on)
Has anyone encountered similar issues?
Thank you in advance