BreakFusion specifications


Unique identifier OMICS_01342
Name BreakFusion
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data One or a set of whole transcriptome files that contains mapped paired-end RNA-seq reads.
Input format BAM
Output data Junctions.
Operating system Unix/Linux
Programming languages C++, Perl
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes


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  • person_outline Ken Chen <>
  • person_outline Li Ding <>

Publication for BreakFusion

BreakFusion institution(s)
Department of Bioinformatics and Computational Biology, UT MD Anderson Cancer Center, Houston, TX, USA; The Genome Institute, St Louis, MO, USA; Department of Genetics, Washington University, St Louis, MO, USA; Canada’s Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, BC, Canada; Department of Internal Medicine, Division of Oncology, Washington University, St Louis, MO, USA
BreakFusion funding source(s)
Supported by The Cancer Center Support Grant from NCI (P30 CA016672); Center for Large-Scale Genome Sequencing and Analysis from NHGRI (U54 HG003079); Structural Genomic Variation analysis for the 1000 Genome project from NHGRI (U01 HG005209).

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