ViReMa specifications


Unique identifier OMICS_00225
Name ViReMa
Alternative name Viral Recombination Mapper
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Python
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes


No version available


  • person_outline Andrew Routh

Publication for Viral Recombination Mapper

ViReMa citation


Parallel ClickSeq and Nanopore sequencing elucidates the rapid evolution of defective interfering RNAs in Flock House virus

PLoS Pathog
PMCID: 5435362
PMID: 28475646
DOI: 10.1371/journal.ppat.1006365

[…] rst to the FHV genome (NC_004414 and NC_004146) and next to host D. melanogaster genome (fb5_22). The remaining unmapped reads were processed to identify recombination events using the python script ‘ViReMa’ (Viral Recombination Mapper)[] (command line parameters:--N 1 --X 5 --Seed 25 --Host_Seed 30 --Defuzz 0 --MicroInDel 5). The frequency of a specific recombination event is approximated by divi […]

ViReMa institution(s)
Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA, USA
ViReMa funding source(s)
Supported by a European Molecular Biology Organization Long-Term Fellowship.

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