ipyrad: Interactive assembly and analysis of RADseq datasets.
Bioinformatics
; 36(8): 2592-2594, 2020 04 15.
Article
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| MEDLINE
| ID: mdl-31904816
ABSTRACT
SUMMARY:
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. AVAILABILITY AND IMPLEMENTATION ipyrad is a free and open source program written in Python. Source code is available from the GitHub repository (https//github.com/dereneaton/ipyrad/), and Linux and MacOS installs are distributed through the conda package manager. Complete documentation, including numerous tutorials, and Jupyter notebooks demonstrating example assemblies and applications of downstream analysis tools are available online https//ipyrad.readthedocs.io/.
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1
Colección:
01-internacional
Banco de datos:
MEDLINE
Asunto principal:
Programas Informáticos
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Documentación
Idioma:
En
Revista:
Bioinformatics
Asunto de la revista:
INFORMATICA MEDICA
Año:
2020
Tipo del documento:
Article
País de afiliación:
Estados Unidos