Open Accessipyrad: Interactive assembly and analysis of RADseq datasets
Author(s) -
Deren A. R. Eaton,
Isaac Overcast
Publication year - 2019
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/btz966
Subject(s) - python (programming language) , computer science , scripting language , source code , suite , documentation , scalability , open source , programming language , operating system , software , codebase , interface (matter) , rapid prototyping , software engineering , database , history , archaeology , maximum bubble pressure method , engineering , mechanical engineering , bubble
ipyrad is a free and open source tool for assembling and analyzing restriction site-associated DNA sequence datasets using de novo and/or reference-based approaches. It is designed to be massively scalable to hundreds of taxa and thousands of samples, and can be efficiently parallelized on high performance computing clusters. It is available both as a command line interface and as a Python package with an application programming interface, the latter of which can be used interactively to write complex, reproducible scripts and implement a suite of downstream analysis tools.
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