ShatterProof statistics

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ShatterProof specifications

Information


Unique identifier OMICS_03518
Name ShatterProof
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The software works with output produced by any SV tool, in files containing only the information needed for chromothriptic analysis.
Input format Simple tab delimited input file formats (CNV input, translocation input, insertion input, LOH input).
Operating system Unix/Linux, Mac OS, Windows
Programming languages Perl
License GNU General Public License version 3.0
Computer skills Advanced
Version 0.14
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Paul Boutros <>

Additional information


http://search.cpan.org/~boutroslb/Shatterproof/lib/Shatterproof.pm

Publication for ShatterProof

ShatterProof in publications

 (3)
PMCID: 5751811
PMID: 29295717
DOI: 10.1186/s12885-017-3976-z

[…] and erg were determined by combining deletions of the genes ets2, bace2, brwd1, psmg1 and hmgn1. for the cpc-gene cohort, scores for chromothripsis and kataegic regions were computed using the shatterproof [] and seqkat (fraser et al. nature, in press) algorithms. the maximum values for each sample were used for comparison (wilcoxon-mann-whitney test) to ascertain that despite their rare […]

PMCID: 5610241
PMID: 28939825
DOI: 10.1038/s41467-017-00377-y

[…] generated by illumina infinium human methylation 450k beadchip kits (n = 104). genomic rearrangements were called using delly (v0.5.5) (n = 172). chromothripsis scores (n = 159) were calculated by shatterproof (v0.14) and subsequently dichotomized with a 0.517 threshold. sample processing, whole-genome sequencing and whole-genome sequencing data analysis are as described in detail by fraser et […]

PMCID: 5227331
PMID: 28067867
DOI: 10.1038/ncomms13671

[…] were corrected for multiple comparisons with fdr. entire chromosomes containing mega-basepair bins with significantly different proportions of breakpoints were visualized using circos (v0.67-4)., shatterproof was used with default settings to examine the presence of chromothripsis through the analysis of copy-number aberrations, loss of heterozygosity, and genomic translocations, […]


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ShatterProof institution(s)
Ontario Institute for Cancer Research, Toronto, ON, Canada; Vancouver; Prostate Centre and Department of Urologic Sciences, University of British Columbia, Vancouver, BC, Canada; STTARR Innovation Program, Toronto, ON, Canada; Radiation Medicine Program, Ontario Cancer Institute, Toronto, ON, Canada; Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada; Department of Pathology, University Health Network, Toronto, ON, Canada; Department of Pharmocology and Toxicology, University of Toronto, Toronto, ON, Canada
ShatterProof funding source(s)
Supported by Movember funds through Prostate Cancer Canada, with the additional support of the Ontario Institute for Cancer Research through funding provided by the Government of Ontario and by a Terry Fox Research Institute New Investigator Award.

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