IMSindel statistics

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Citations per year

Number of citations per year for the bioinformatics software tool IMSindel
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Tool usage distribution map

This map represents all the scientific publications referring to IMSindel per scientific context
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Associated diseases

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Popular tool citations

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IMSindel specifications

Information


Unique identifier OMICS_30146
Name IMSindel
Alternative name InterMediate-Size indel
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Ruby
Computer skills Advanced
Stability Stable
Requirements
samtools, mafft, glsearch, BioRuby
Maintained Yes

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Versioning


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Maintainers


  • person_outline Tatsuhiko Tsunoda
  • person_outline Daichi Shigemizu

Publication for InterMediate-Size indel

IMSindel citation

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IMSindel: An accurate intermediate size indel detection tool incorporating de novo assembly and gapped global local alignment with split read analysis

2018
Sci Rep
PMCID: 5884821
PMID: 29618752
DOI: 10.1038/s41598-018-23978-z

[…] To evaluate our method and compare it with the other intermediate-size indel detection methods, we generated in silico data. Human chromosome 22 (GRCh37) was used as the reference genome. First, we divided the reference genome into 10 kb bins, and rando […]


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IMSindel institution(s)
Department for Medical Genome Sciences, Medical Genome Center, National Center for Geriatrics and Gerontology, Aichi, Japan; Department of Medical Science Mathematics, Medical Research Institute, Tokyo Medical and Dental University (TMDU), Tokyo, Japan; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan; Medical Sciences Innovation Hub Program, Cluster for Science and Technology Hub, RIKEN, Yokohama, Japan; CREST, JST, Japan; Niigata University Graduate School of Medical and Dental Sciences, Niigata, Japan; Department of Drug Discovery Medicine, Graduate School of Medicine, Kyoto University, Kyoto, Japan; Division of Regenerative Medicine, Institute for Clinical Research, Osaka National Hospital, National Hospital Organization, Osaka, Japan; Department of Neurosurgery, Osaka National Hospital, National Hospital Organization, Osaka, Japan; Department of Medical Genetics, Osaka Medical Center and Research Institute for Maternal and Child Health, Osaka, Japan; Department of Pediatrics and Neonatology, Nagoya City University Graduate School of Medical Sciences, Nagoya, Japan; Department of Pediatrics, Showa University School of Medicine, Tokyo, Japan; Department of Pediatric Neurosurgery, Takatsuki General Hospital, Osaka, Japan; Division of Hearing and Balance Research, National Institute of Sensory Organs, National Hospital Organization Tokyo Medical Center, Tokyo, Japan; Center for Medical Genetics, Keio University School of Medicine, Tokyo, Japan
IMSindel funding source(s)
Supported by Te Ichiro Kanehara Foundation, Grant-in-Aid for Young Scientists (Number: 16K19068) of Ministry of Education, Culture, Sports, Science and Technology, and JST CREST (Grant Number JPMJCR1412), Japan.

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