BLASR Genome Coverage Track Settings
 
Coverage of BLASR Aligned PacBio Reads   (All Mapping and Sequencing Tracks)

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Data last updated at UCSC: 2013-09-29 16:04:57

Description

D. ananassae PacBio reads generated by the Genome Institute at Washington University were aligned against the D. ananassae CAF1 genome assembly using BLASR. Alignment coverage are generated using the genomeCoverageBed program in the bedtools suite.

Methods

After constructing a bwt index for the D. ananassae CAF1 assembly, D. ananassae PacBio reads from 8 SMRT cells were aligned against the D. ananassae CAF1 assembly using BLASR with the following parameters:

  • minPctIdentity 70
  • bestn 1

References

Chaisson MJ, Tesler G. Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory. BMC Bioinformatics. 2012 Sep 19;13:238