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General FAQ

BAM tags explained

Following BAM tags are being used:

  • ib Barcode summary: triplets delimited by semicolons, each triplet contains two barcode indices and the ZMW counts, delimited by comma. Example: 0,1,20;0,3,5
  • ic Sum of number of passes from all ZMWs used to create consensus
  • im ZMW names associated with this isoform
  • is Number of ZMWs associated with this isoform
  • it List of barcodes/UMIs clipped during tag
  • iz Maximum number of subreads used for polishing
  • rq Predicted accuracy for polished isoform
  • XA Order of tag names
  • XC barcode sequence tag
  • XG PacBio’s GGG UMI suffix tag
  • XM UMI sequence tag
  • XO overhang sequence tag

Quality values are capped at 93.

The binary does not work on my linux system!

Binaries require SSE4.1 CPU support; CPUs after 2008 (Penryn) include it.


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