Abstract
Summary: To address the need for improved tools for annotation and comparative genomics of bacteriophage genomes, we developed multiPhATE2. As an extension of the multiPhATE code, multiPhATE2 includes comparative genomics codes for gene matching among sets of input bacteriophage genomes, and scales well to large input data sets due to incorporation of multiprocessing in the functional annotation and comparative genomics subsystems. Furthermore, additional search algorithms and databases have been added to the functional annotation subsystem. MultiPhATE2 was implemented in Python 3.7, and runs as a command-line code under Linux or MAC-OS.
- Developers:
-
Kimbrel, Jeffrey [1] ; Zhou, Carol [1]
- Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
- Release Date:
- 2020-09-16
- Project Type:
- Open Source, Publicly Available Repository
- Software Type:
- Scientific
- Version:
- 2.0
- Licenses:
-
GNU General Public License v3.0
- Sponsoring Org.:
-
USDOE National Nuclear Security Administration (NNSA)Primary Award/Contract Number:AC52-07NA27344
- Code ID:
- 68207
- Site Accession Number:
- LLNL-CODE- 818246
- Research Org.:
- Lawrence Livermore National Laboratory (LLNL), Livermore, CA (United States)
- Country of Origin:
- United States
Citation Formats
Kimbrel, Jeffrey A., and Zhou, Carol E.
Multi-genome Phage Annotation Toolkit and Evaluator.
Computer Software.
https://github.com/carolzhou/multiPhATE2.
USDOE National Nuclear Security Administration (NNSA).
16 Sep. 2020.
Web.
doi:10.11578/dc.20211210.5.
Kimbrel, Jeffrey A., & Zhou, Carol E.
(2020, September 16).
Multi-genome Phage Annotation Toolkit and Evaluator.
[Computer software].
https://github.com/carolzhou/multiPhATE2.
https://doi.org/10.11578/dc.20211210.5.
Kimbrel, Jeffrey A., and Zhou, Carol E.
"Multi-genome Phage Annotation Toolkit and Evaluator." Computer software.
September 16, 2020.
https://github.com/carolzhou/multiPhATE2.
https://doi.org/10.11578/dc.20211210.5.
@misc{
doecode_68207,
title = {Multi-genome Phage Annotation Toolkit and Evaluator},
author = {Kimbrel, Jeffrey A. and Zhou, Carol E.},
abstractNote = {Summary: To address the need for improved tools for annotation and comparative genomics of bacteriophage genomes, we developed multiPhATE2. As an extension of the multiPhATE code, multiPhATE2 includes comparative genomics codes for gene matching among sets of input bacteriophage genomes, and scales well to large input data sets due to incorporation of multiprocessing in the functional annotation and comparative genomics subsystems. Furthermore, additional search algorithms and databases have been added to the functional annotation subsystem. MultiPhATE2 was implemented in Python 3.7, and runs as a command-line code under Linux or MAC-OS.},
doi = {10.11578/dc.20211210.5},
url = {https://doi.org/10.11578/dc.20211210.5},
howpublished = {[Computer Software] \url{https://doi.org/10.11578/dc.20211210.5}},
year = {2020},
month = {sep}
}