alu-detect protocols

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alu-detect specifications

Information


Unique identifier OMICS_09837
Name alu-detect
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Illumina
Operating system Unix/Linux
Programming languages C++
Computer skills Advanced
Stability Stable
Maintained Yes

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  • person_outline Michael Brudno <>

Publication for alu-detect

alu-detect in pipeline

2015
PMCID: 4666360
PMID: 26503250
DOI: 10.1093/nar/gkv1089

[…] as ‘aluysimple’, ‘alussimple’, ‘alustr’ or ‘alumosaic’. overlapping calls were counted from intersection of any call located within 100 bp. the 1727 alu insertion calls for na18506 were based on alu-detect analysis () of erx009608 as obtained from the sequence read archive. consistent with that study, calls were relative to the hg18 genome assembly, and any call located within 100 bp […]


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alu-detect in publication

PMCID: 4666360
PMID: 26503250
DOI: 10.1093/nar/gkv1089

[…] the na18506 sample resulted in 1375 putative alu insertions having a quality score of 6 or higher. a total of 820 alu insertions were fully assembled, of which 774 intersect with calls reported by alu-detect (out of 1727 total calls) (), again implying a fdr around 5%., in validation, our specific goals were to demonstrate (i) the presence of the alu at that chromosomal location, (ii) […]


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alu-detect institution(s)
Department of Computer Science, University of Toronto, Toronto, ON, Canada
alu-detect funding source(s)
Canadian Institutes for Health Research (CIHR) Catalyst Grant and Ontario Research Fund (ORF) GL2 grant

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