Enhancements

• Inputs for IsoQuant are split on chromosome to allow for faster processing
• The read counts QC metric is now able to leverage NanoPlot counts if FastQC is skipped
• Added oarfish as an option for quantification
• Added picard markdupes as an option for deduplication

Fixes

• The ‘Post Trim Read QC’ and ‘Post Extract Read QC’ nodes on the metro diagram have been placed in correct locations (closes issue #36)
• The BLAZE process in the example config has been corrected to use cpus instead of --threads

Software dependencies