benraha

Added an optimisation to spare not required shuffle of unpaired reads

27

This PR adds an option to avoid shuffling the entire alignment dataset when transforming to FragmentDataset. This adds a boolean parameter to the function toFragments() that, when specified, the FragmentDataset...

Spare not needed groupBy when calling toFragments() on AlignmentDataset

4

Hi! I'm running a process that is pre-processing a bunch of reads before aligning them using Bowtie. Most of them are unpaired, so when I run toFragments(), I need to...

Changing the implementation of the joinWithIndex to use the B-Tree

1

instead of reading the entire file ## Summary resolves #PR/#Issue don't forget: - please state if it is not backward compatible - please add relevant docs to either the function...