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MagicViewer specifications

Information


Unique identifier OMICS_00887
Name MagicViewer
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Zhongsheng Sun <>

Publication for MagicViewer

MagicViewer in publications

 (11)
PMCID: 5876298
PMID: 29628913
DOI: 10.3389/fmicb.2018.00520

[…] years, including tablet (milne et al., ), integrative genomics viewer (igv) (robinson et al., ), sequence annotation, visualization, and analysis tool (savant) genome browser (fiume et al., ), magicviewer (hou et al., ), and cytoscape (kohl et al., ). in the microbiological studies on the dwh oil spill, these st and databases were broadly used for analyzing dna- and rna-based data. […]

PMCID: 5243127
PMID: 28099493
DOI: 10.1371/journal.pone.0170011

[…] identified using soapsnp and gatk programs. subsequently, the reads were realigned to the reference genome using bwa. the identified snps and indels were annotated using the exome-assistant program. magicviewer was used to view the short read alignments and validate the candidate snps and indels. the variants detected by targeted next-generation sequencing were confirmed by sanger sequencing. […]

PMCID: 5364830
PMID: 28035354
DOI: 10.3892/mmr.2016.6082

[…] insertions (indels) were detected using genome analysis toolkit software (). the identified snps and indels were annotated using the exome-assistant program (http://122.228.158.106/exomeassistant). magicviewer was used to view the short read alignment, and confirm the candidate snps and indels (). non-synonymous variants were evaluated using the four algorithms, polyphen […]

PMCID: 5064415
PMID: 27739455
DOI: 10.1038/srep35360

[…] out common snps and indels, with minor allele frequency (maf) > 0.01, the exome-assistant program (http://122.228.158.106/exomeassistant) was then used for annotation of all identified variants. magicviewer was applied to view the short read alignment and ascertain the candidate snps and indels. missense variants were assessed with polyphen-2 (http://genetics.bwh.harvard.edu/pph2/) and sift […]

PMCID: 4899602
PMID: 27330822
DOI: 10.1038/hgv.2016.9

[…] using the genome analysis toolkit program. the identified single-nucleotide polymorphisms and indels were annotated using the exome-assistant program (http://122.228.158.106/exomeassistant). the magicviewer software was used to view the short-read alignments and validate the candidate single-nucleotide polymorphisms and indels. finally, non-synonymous variants were evaluated using four […]


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MagicViewer institution(s)
Institute of Genomic Medicine, Wenzhou Medical College, Wenzhou, China; Center for Comparative Genomics and Bioinformatics, Department of Biochemistry and Molecular Biology, Pennsylvania State University, PA, USA; School of Pharmaceutical Science/Zhejiang Provincial Key Laboratory of Biotechnology Pharmaceutical Engineering, Wenzhou Medical College, Wenzhou; Behavioral Genetics Center, Institute of Psychology, Chinese Academy of Science, Beijing, China

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