Pinned Repositories
aws
Easy command line access to Amazon EC2, S3, SQS, ELB, and SDB (new!)
FALCON-examples
Examples on branches, and a useful place for testing
FALCON_unzip
foo
git-sym
See https://github.com/pb-cdunn/git-sym for examples.
git-sym-test
Tests for git-sym
nim-multiproc
Like Python multiprocessing, but for type-safe function calls (using msgpack)
pbdagcon
A sequence consensus algorithm implementation based on using directed acyclic graphs to encode multiple sequence alignment
pb-cdunn's Repositories
pb-cdunn/FALCON-examples
Examples on branches, and a useful place for testing
pb-cdunn/FALCON_unzip
foo
pb-cdunn/Badread
a long read simulator that can imitate many types of read problems
pb-cdunn/DALIGNER
Find all significant local alignments between reads
pb-cdunn/DAMASKER
Module to determine where repeats are and make soft-masks of said
pb-cdunn/datrie
Fast, efficiently stored Trie for Python. Uses libdatrie.
pb-cdunn/DAZZ_DB
The Dazzler Data Base
pb-cdunn/DEXTRACTOR
Bax File Decoder and Data Compressor
pb-cdunn/edlib
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
pb-cdunn/FALCON
FALCON: experimental PacBio diploid assembler
pb-cdunn/FALCON-integrate
Build and integration- testing for FALCON
pb-cdunn/FALCON-make
This is one way to install the FALCON packages residing in FALCON-integrate:
pb-cdunn/falcon3
falcon in python3
pb-cdunn/falcon_unzip3
falcon-unzip in python3
pb-cdunn/GenomeWorks
SDK for GPU accelerated genome assembly and analysis
pb-cdunn/gin
Gin is a HTTP web framework written in Go (Golang). It features a Martini-like API with much better performance -- up to 40 times faster. If you need smashing performance, get yourself some Gin.
pb-cdunn/harmony
Compute error profiles from alignments
pb-cdunn/nim-falcon
Experimental re-write of FALCON in Nim
pb-cdunn/nim-feedstock
A conda-smithy repository for nim.
pb-cdunn/nim-help
Need help debugging gc problem in Nim
pb-cdunn/nimble
Package manager for the Nim programming language.
pb-cdunn/pb-assembly
PacBio Assembly Tool Suite: Reads in ⇨ Assembly out
pb-cdunn/plotly.py
An open-source, interactive graphing library for Python :sparkles:
pb-cdunn/purge_dups
haplotypic duplication identification tool
pb-cdunn/pypeFLOW
Flexible workflow engine
pb-cdunn/pypeFLOW-1
a simple lightweight workflow engine for data analysis scripting
pb-cdunn/pypeflow3
pypeFLOW in python3
pb-cdunn/raptor
pb-cdunn/snakemake
https://bitbucket.org/snakemake/snakemake/pull-requests/388/get-datrie-from-datrie-2019-package-which/diff
pb-cdunn/toil
A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.