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HumanCellAtlas / secondary-analysis

Secondary Analysis Service of the Human Cell Atlas Data Coordination Platform
https://pipelines.data.humancellatlas.org/ui/
BSD 3-Clause "New" or "Revised" License
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Incorporate additional metrics into SS2 outputs #758

Open kbergin opened 5 years ago

kbergin commented 5 years ago

Besides Picard metrics, we need to collect the following metrics

  1. multiple mapping vs unique mapping reads
  2. number of detected genes, number of high coverage genes

Note some of the metrics can be extracted from 1) aligner log files. 2) parse bam file tags.

AC: Metrics are added to pipeline, and added to analysis.json outputs

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