IMR-DENOM statistics

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IMR-DENOM specifications

Information


Unique identifier OMICS_06975
Name IMR-DENOM
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Biological technology Illumina
Operating system Unix/Linux
Computer skills Advanced
Stability No
Maintained No

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Publication for IMR-DENOM

IMR-DENOM in publications

 (2)
PMCID: 5891927
PMID: 29666611
DOI: 10.3389/fmicb.2018.00593

[…] were trimmed and cleaned with trimgalore v. 0.4.2., the genome of m. fructicola ap47 was assembled at first with a de novo approach, using spades (), and then with a reference guided approach using imr-denom, with the strain 277 as the reference., analysis of the sequence reads was implemented by using smrt analysis 2.3.0. the best de novo assembly was established with the pacbio hierarchical […]

PMCID: 5909465
PMID: 29149280
DOI: 10.1093/dnares/dsx045

[…] (october 2017, date last accessed)), which combines iterative variant calling and de novo assembly, was used to generate cor and luc genome sequences. a similar approach is also implemented in the imr-denom pipeline, which has been used for the genome reconstruction of 18 arabidopsis accessions (gan et al 2011). the final size of the reconstructed genomes of cor and luc were 823, 643, 567 bp […]


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IMR-DENOM institution(s)
Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK; Max Planck Institute for Intelligent Systems and Max Planck Institute for Developmental Biology, Tübingen, Germany; Friedrich Miescher Laboratory, Max Planck Society, Tübingen, Germany; Department of Biology, University of Utah, Salt Lake City, UT, USA; Department of Plant Pathology, Kansas State University, Manhattan, KS, USA; Department of Statistics, University of Oxford, Oxford, UK; European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, UK; Department of Plant Sciences, University of Oxford, Oxford, UK; The Sainsbury Laboratory, Norwich, UK; Department of Biology and Biochemistry, University of Bath, Bath, UK
IMR-DENOM funding source(s)
Supported by the Biotechnology and Biological Sciences Research Council BB/F022697/1, BB/D016029/2, BB/F020759/1 and BB/F019793/1, by core funding of the Max Planck Society, the German Research Foundation RA1894/1-1 and RA1894/2-1 Volkswagen Stiftung, the National Science Foundation 0929262 and 0820985 (Principal Investigator L. Sieburth), and award no. KUK-I1-002-03 made by King Abdullah University of Science and Technology, and the Wellcome Trust Core grant 090532/Z/09/Z and contribution no. 11-388-J from the Kansas Agricultural Experiment Station.

IMR-DENOM review

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srv

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Desktop
Hello
Please guide me how to install imr/denom because it's site is not open..

Thank you