CLIIQ statistics

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Citations per year

Citations chart

Popular tool citations

chevron_left Known transcript quantification Gene fusion detection Alternative splicing events identification Reference-based transcriptome assembly chevron_right
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Tool usage distribution map

Tool usage distribution map

Associated diseases

Associated diseases

CLIIQ specifications


Unique identifier OMICS_01272
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes


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  • person_outline S. Cenk Sahilp <>
  • person_outline Yen-Yi Lin <>

Additional information

Publication for CLIIQ

CLIIQ in publication

PMCID: 4331715
PMID: 25708199
DOI: 10.1186/1471-2164-16-S2-S15

[…] by mapping rna-seq reads to the reference genome. after that, different algorithms can be used to infer transcripts from mapped reads, including cufflinks [,], isoinfer [], isolasso [], slide [], cliiq [], mitie [], etc. this ab initio approach is different from the de novo approach where reference genome is not used (such as abyss [], trinity [], etc.), and is able to take advantage […]

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CLIIQ institution(s)
School of Computing Science, Simon Fraser University, Burnaby, BC, Canada; Vancouver Prostate Centre & Department of Urologic Sciences, University of British Columbia, Vancouver, BC, Canada

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