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alignment

Contains BLASR-derived alignment algorithm routines

blasr

BLASR: The PacBio® long read aligner

blasr_libcpp

daligner

Find all significant local alignments between reads

dazz_db

The Dazzler Data Base

dconvert

dextractor

Version 1.0

falcon

FALCON: experimental PacBio diploid assembler

findingfrequentwords

img

Image file repo

pacbiofileformats

Specifications for PacBio® native file formats

pb-correction-workflow

Composition of all the tools necessary to run a PacBio correction workflow

pbalign

pbalign maps PacBio reads to reference sequences and saves alignments to a SAM or cmp.h5 file.

pbbioconda

PacBio Secondary Analysis Tools on Bioconda

pbdagcon

A sequence consensus algorithm implementation based on using directed acyclic graphs to encode multiple sequence alignment

pbdata

Houses relevant datastructures derived from BLASR refactor

pblibblasr

Refactored blasr core common into a library

pbutgcns

DAG-based consensus caller for celera assemblers unitigs

pi

Pacbio Integration -- a consistent contour of submodule commits for all GitHub repos that we use internally

read-overlapper

Fast, simple model for overlapping PBI reads using a kmer-based approach

refactored_blasr

smrtmake

Hackable smrtpipe workflows using makefiles instead of smrtpipe.py

yaar

Web-based alignment viewer, just for fun