rSW-seq statistics

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Citations per year

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Popular tool citations

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rSW-seq specifications

Information


Unique identifier OMICS_00351
Name rSW-seq
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline Peter J. Park <>

Publication for rSW-seq

rSW-seq in pipeline

2012
PMCID: 3446302
PMID: 22531030
DOI: 10.1186/gb-2012-13-4-r28

[…] htseq union mode [], and used the unique mapping reads to calculate reads per kb per million mapped (rpkm) as the normalized metric of gene expression. we identified the novel df breakpoint with rsw-seq [] and determined fold-difference for aneuploid segments with samtools [], which we expressed as reads per million (rpm). all but the smallest 5 kb deletion was detected using this method. […]


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rSW-seq in publications

 (3)
PMCID: 4479793
PMID: 26161383
DOI: 10.3389/fbioe.2015.00092

[…] of the same length., a considerable number of methods for the detection of cnv in whole-genome sequencing (wgs) data have been reported in the literature, including cnvnator, cnanorm, cnaseg, rsw-seq, cn.mops, jointslm, readdepth, and bic-seq (ivakhno et al., ; kim et al., ; abyzov et al., ; magi et al., ; miller et al., ; xi et al., ; gusnanto et al., ; klambauer et al., ). recently, […]

PMCID: 3604020
PMID: 23527109
DOI: 10.1371/journal.pone.0059128

[…] but we believe they represent a fair number of cnv detection methods for ngs data. lists the detailed information of the existing cnv detection methods to the best of the authors’ knowledge. rsw-seq was excluded because of no publicly available codes. cnanorm was not available when we started our study. cnd and cnaseg were excluded because of stability issue. from the same dataset, […]

PMCID: 3446302
PMID: 22531030
DOI: 10.1186/gb-2012-13-4-r28

[…] htseq union mode [], and used the unique mapping reads to calculate reads per kb per million mapped (rpkm) as the normalized metric of gene expression. we identified the novel df breakpoint with rsw-seq [] and determined fold-difference for aneuploid segments with samtools [], which we expressed as reads per million (rpm). all but the smallest 5 kb deletion was detected using this method. […]


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rSW-seq institution(s)
Center for Biomedical Informatics, Harvard Medical School, MA, USA

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