Justin Chu
Justin Chu
Add option to output sam or paf output. There won't be alignment but the data could then be indexed for faster access for specific subsets using existing tools.
The compression option has been reported as an order of magnitude slower than without. I am probably using zlib in a very inefficient way. Profiling and optimization for this option...
Include a script that uses an existing k-mer counter package to create a repeat filter. It should be part of the standard kollector pipeline. Candidate packages to use for this:...
Say you are only given a longranger processed BAM file that you would like to use for other purposes. Many tools cannot use BAM format directly. It could be useful...
Add an option to not include low complexity k-mers using DUST during filter creation, which may help improve specificity downstream.
Often some link parameters will need to be tweaked and pipeline rerun. The make file structure of the tool helps with this but requires some understanding of make files to...