Mapping all sequences (NOT READ COUNTS) in a SAM/BAM file that has genome coordinates to their genes

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  • STAR

    RNA-seq aligner

    • I believe the most straightforward solution would be to add a tag that designates which gene the read overlaps (if any). Lucky for you, this is now implemented in star as of version 2.7.3a. I've actually not used this feature yet, but I believe it is done using the flag --outSAMattributes GN see here.

  • InfluxDB

    Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.

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