SHRiMP specifications


Unique identifier OMICS_00685
Alternative names SHort Read Mapping Package, SHRiMP2
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The reads and the genome files.
Input format FASTA,FASTAQ
Output format SAM
Biological technology Illumina, Roche
Operating system Unix/Linux, Mac OS
Programming languages C, C++
Computer skills Advanced
Version 2.2.3
Stability Stable
Source code URL
Maintained Yes



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  • person_outline Matei David <>
  • person_outline Michael Brudno <>

Additional information

Publications for SHort Read Mapping Package

SHRiMP institution(s)
Department of Computer Science, Princeton University, Princeton, NJ, USA; Department of Computer Science, University of Toronto, Toronto, ON, USA; Department of Computer Science, University of Western Ontario and Donnelly Centre, University of Toronto, Toronto, ON, USA
SHRiMP funding source(s)
Supported by MITACS, CIHR, and Life Technologies research grants, NSF grant (CCF-0832797).

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