RVD specifications

Information


Unique identifier OMICS_00073
Name RVD
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

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Publications for RVD

RVD in publications

 (2)
PMCID: 5244592
PMID: 28103803
DOI: 10.1186/s12859-016-1451-5

[…] sample allele frequencies []., in previous work, we developed a beta-binomial model to estimate a null hypothesis error rate distribution at each position. using this rare variant detection (rvd) model, we call rare variants by comparing the error rate of the sample sequence data to a null distribution obtained from sequencing a known reference sample []. rvd can identify mutant […]

PMCID: 4633648
PMID: 26538451
DOI: 10.1038/srep16178

[…] miseq with 150 × 150 paired end reads. all the samples exceeded 10,000× average coverage with one exception; this sample had 9,077× average coverage. on the aligned sequence data, we used the rvd program for quantitative detection of mutations at low allelic fraction. as noted previously rvd relies on the sequence data from the control replicate to characterize a position specific error […]


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RVD institution(s)
Department of Biomedical Engineering, Worcester Polytechnic Institute, Worcester and Department of Mathematics and Statistics, University of Massachusetts, Amherst, MA, USA
RVD funding source(s)
Supported by seed funding from Worcester Polytechnic Institute and by PhRMA Foundation Informatics Grant 2013080079.

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