JAGuaR pipeline

JAGuaR specifications


Unique identifier OMICS_07356
Name JAGuaR
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.1
Stability Stable
Maintained Yes


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  • person_outline Yaron Butterfield <>

Publication for JAGuaR

JAGuaR IN pipeline

PMCID: 5053718
PMID: 27058758
DOI: 10.18632/oncotarget.8612

[…] picard tools (version 1.31). after the alignment, the junction-aligned reads that mapped to exon-exon junctions were repositioned to the genome as large-gapped alignments and tagged with “zj:z” by jaguar (version 2.0). after repositioning, hg19-aligned bam files were split into positive-fragment and negative-fragment bam files based on the orientation of the paired-end reads. unmapped […]

JAGuaR institution(s)
Canada's Michael Smith Genome Sciences Centre, Vancouver, BC, Canada

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