VirAmp statistics

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Associated diseases

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VirAmp specifications

Information


Unique identifier OMICS_08325
Name VirAmp
Interface Web user interface
Restrictions to use None
Programming languages Python, Shell (Bash)
License MIT License
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Moriah L. Szpara <>

Publication for VirAmp

VirAmp in publications

 (3)
PMCID: 5730764
PMID: 29046445
DOI: 10.1128/JVI.00908-17

[…] majority of viral de novo assembly algorithms have been developed and tested only for rna viruses (see reference for a review of options). we developed the web-based viral de novo assembly workflow viramp specifically for herpesviruses (), using the galaxy framework of web-accessible bioinformatics tools (, ). most other options for viral genome assembly, alignment, annotation, and comparison […]

PMCID: 5477188
PMID: 28473380
DOI: 10.1128/genomeA.00271-17

[…] (accession number nz_cp013140.1). the ordered scaffolds were rescaffolded using sspace (). all tools, except for blast and mauve, were implemented through galaxy servers [main (), gvl (), and viramp ()]. the draft genome was annotated using rast (, ). to overcome the read collapse observed in the rrn operon region due to its repetitive nature, the rrn copy number of b25 was estimated […]

PMCID: 1253535
PMID: 16168051
DOI: 10.1186/1742-4690-2-55

[…] construct is being used to package each vector provides an internal control., levels of rna packaging were assessed by rt-pcr of virion associated rna. virion rna was extracted using the qiagen viramp kit from 10 ng of virus (rt levels). following extraction the rna was also treated with rnase free dnase for 10 mins at 37°c and the dnase was in activated by incubation at 70°c […]


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VirAmp institution(s)
The Huck Institutes of the Life Sciences, University Park, PA, USA

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