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v0.3.1
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@SorenKarst SorenKarst released this 09 Feb 21:11
· 14 commits to master since this release
v0.3.1
ccfd11f

Version v0.3.x of the pipeline is compatible with the descriptions and data in:
SM Karst, RM Ziels, RH Kirkegaard, EA Sørensen, D. McDonald, Q Zhu, R Knight, & M Albertsen. (2020). Enabling high-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing. bioRxiv, 6459039.

Bug fixes

  • Disabled end trimming in Racon, which resulted in truncated UMI consensus sequences. Truncation in some cases resulted in removal of priming sites and the sequences being discarded.
  • UMI cluster size was underestimated by 50% due to mapping settings discarding reverse complement matches. The impact was mainly on low abundant UMI bins, which is primarily relevant for PacBio CCS data.

Major changes

  • Filtering of poor UMI bins by UMI match error, UMI bin size/cluster size ratio and read orientation ratio was integrated into the UMI binning step.

Minor changes

  • Updated readme and example analysis.
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