SparseIso specifications


Unique identifier OMICS_20843
Name SparseIso
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data Input from the alignment of RNA-seq reads from spliced aligners such as TopHat2.
Input format BAM
Output data identified transcripts or isoforms.
Output format GTF
Operating system Unix/Linux
Programming languages C++
Computer skills Advanced
Version 1.0
Stability Stable
nix OS, Boost library, Eigen library, Bamtools API
Maintained Yes



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  • person_outline Jianhua Xuan <>

Publication for SparseIso

SparseIso institution(s)
Bradley Department of Electrical and Computer Engineering, Virginia Polytechnic Institute and State University, Arlington, VA, USA; Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, MD, USA; Lombardi Comprehensive Cancer Center and Department of Oncology, Georgetown University, Washington, DC, USA
SparseIso funding source(s)
Supported by National Institutes of Health (NIH) [CA149653, CA164384, CA149147, CA184902, CA148826, and CA187512].

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