Protocols

HostPhinder specifications

Information


Unique identifier OMICS_19863
Name HostPhinder
Interface Web user interface
Restrictions to use None
Input data A sequence.
Input format FASTA
Programming languages Python, Shell (Bash)
Computer skills Basic
Version 1.1
Stability Stable
Maintained Yes

Maintainers


  • person_outline Mette V. Larsen
  • person_outline Julia Villarroel

Information


Unique identifier OMICS_19863
Name HostPhinder
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Download


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Versioning


No version available

Maintainers


  • person_outline Mette V. Larsen
  • person_outline Julia Villarroel

Publication for HostPhinder

HostPhinder citations

 (2)
library_books

Metagenomic Analysis of Therapeutic PYO Phage Cocktails from 1997 to 2014

2017
Viruses
PMCID: 5707535
PMID: 29099783
DOI: 10.3390/v9110328

[…] ts fragmentation, see above. Bins not belonging to the special cases will hereafter be referred to as draft genomes.To further characterize the draft genomes, we predicted their bacterial hosts using HostPhinder. reports the predicted represented bacterial hosts in the two samples. […]

call_split

AnCo3, a New Member of the Emerging Family of Phage Like Plasmids

2017
Genome Announc
PMCID: 5427195
PMID: 28495760
DOI: 10.1128/genomeA.00110-17
call_split See protocol

[…] -bp paired-end libraries and 30× coverage. The raw reads were assembled using the A5 pipeline (). PHASTER () and PhiSpy () identified prophage regions. RAST () annotated the phage-like plasmid, while HostPhinder1.1 () and tRNAscan () identified the host range of the phage-like plasmid and tRNA genes, respectively.The complete sequence of the phage-like plasmid from S. Derby, designated AnCo3, is 1 […]

HostPhinder institution(s)
Center for Biological Sequence Analysis, Department of Systems Biology, Technical University of Denmark, Lyngby, Denmark; Instituto de Investigaciones Biotecnológicas, Universidad de San Martín, San Martín, Argentina
HostPhinder funding source(s)
Supported by the Center for Genomic Epidemiology at the Technical University of Denmark and funded by grant 09-067103/DSF from the Danish Council for Strategic Research, grant nr. 14-3056 from Oticon Fonden and grant 14-70-0955 from Otto Moensted Fonden.

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