Discover @arq5x Open Source projects

Aaron Quinlan (@arq5x)

arq5x

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Registered over 15 years ago
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Python
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Location 🇺🇸 United States
Country Total Rank 4,236
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bedtools2

bedtools - the swiss army knife for genome arithmetic

gemini

a lightweight db framework for exploring genetic variation.

lumpy-sv

lumpy: a general probabilistic framework for structural variant discovery

poretools

a toolkit for working with Oxford nanopore data

Jupyter Notebook

bedtools

A powerful toolset for genome arithmetic.

grabix

a wee tool for random access into BGZF files.

bedtools-protocols

cyvcf

A fast Python library for VCF files leveraging Cython for speed.

filo

Useful FILe and stream Operations

ggd

nanopore-scripts

Various scripts and recipes for working with nanopore data

bedtools-python

A Python interface to the BEDTools API using Cython

kway-mergesort

A templated C++ API for memory-assisted, k-way merge sorts

piledriver

Basic, no assumptions, multi-pileup

bits

BITS: Binary Interval Search

Hydra

chrom_sweep

Sweep-line algorithm for genomic features. Detect overlaps on large files w/ minimal memory.

bash_completion

scurgen

A tool for detecting patterns in genomic data with space filling curves

vitae

ggd-recipes

Recipes for GGD

toy_bottle_bootstrap_app

A demonstration of using bottle with bootstrap for basic web app development

tutorials

hawk

header awk: awk with _named_ variables

lab_website

quinlan lab website (quinlanlab.org)

codachrom

Chromosomal copy number tools.

bedtools-galaxy

knotty

A comprehensive SV discovery suite.

bits_paper

arq5x.github.io