Squared distance for anchored alignment joiner of ea-utils.
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recipe
tests version; includes -h Dec 15, 2015
Makefile g++ Dec 15, 2015
README.md
fastq-join.cpp version; includes -h Dec 15, 2015
fastq-lib.cpp init Dec 15, 2015
fastq-lib.h init Dec 15, 2015

README.md

fastq-join

This is the work of:

Erik Aronesty (2013). TOBioiJ : "Comparison of Sequencing Utility Programs", DOI:10.2174/1875036201307010001

Changes

The Versioning here is awful. I've bumped the version with no major changes or bug fixes to the original algorithm.

Build

git clone https://github.com/brwnj/fastq-join
cd fastq-join
make

Some tests are failing when building on OS X versus Redhat 6.6. OS X gives "nan" while Redhat gives "-nan".

Example Usage

fastq-join -p 2 -m 200 test_R1.fastq test_R2.fastq -o test_%.fastq