PBSuite Blog

I've spent the last couple of months really diving into the Structural Variant (SV) discovery tool PBHoney. It's been heavily refactored and improved so that PBHoney is the one stop shop for SV discovery with long reads. This tool is now extremely easy to use, blazingly fast, and incredibly accurate. We'll be publishing presenting PBHoney's performance on multiple human genomes in the next few months. For all the details on what's changed in this new version of PBSuite, check the CHANGELOG.txt. Here are some highlights of my favorite changes:

Going from .fastq to .tails.bam is a single command with Honey.py pie.
Spots now calls a consensus and gets a more accurate breakpoint and full variant sequence.
Spots now throws in genotype information
Extreme Multiprocessing -- PBHoney is now multiprocessed and has splitting options with the --chrom parameter. Human Chromosome 1 with ~40x coverage can process through Spots in ~9 hours on an 8 core machine.

EDIT - Apparently the .tar I uploaded was corrupted. A new file has been uploaded.
EDIT - Thanks to Paul B. for reporting a bug with PBJelly.Collection. This has been placed in patch p1 and I included sawriter safety checks with the version. See CHANGELOG for details