PhyloPythia protocols

PhyloPythia specifications

Information


Unique identifier OMICS_01459
Name PhyloPythia
Interface Web user interface
Restrictions to use None
Input data A multiclass support vector machine (SVM) classifier with the oligonucleotide composition of variable-length genome fragments.
Computer skills Basic
Stability No
Maintained No

Maintainer


This tool is not available anymore.

Publication for PhyloPythia

PhyloPythia IN pipeline

2016
PMCID: 4926282
PMID: 27353502
DOI: 10.1038/srep28810

[…] was set to 150. gene finding and annotation and binning was performed following the strategy developed by campanaro et al.19. taxonomy was determined using phylophlan42 and further refined using phylopythia software43. kegg functional analysis was refined using ghostkoala (http://www.kegg.jp/ghostkoala/). reads were aligned on scaffolds larger than 500 bp with bowtie2 software44 and scaffold […]

PhyloPythia institution(s)
Bioinformatics and Pattern Discovery Group, IBM Thomas J Watson Research Center, Yorktown Heights, NY, USA; US Department of Energy Joint Genome Institute, Walnut Creek, CA, USA
PhyloPythia funding source(s)
Supported by the US Department of Energy’s Office of Science, Biological and Environmental Research Program, the University of California, Lawrence Livermore National Laboratory, under contract W-7405-Eng-48; Lawrence Berkeley National Laboratory under contract DE-AC03-76SF00098, and Los Alamos National Laboratory under contract W-7405-ENG-36.

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