FEM specifications


Unique identifier OMICS_27964
Name FEM
Alternative name Fast and Efficient read Mapper
Software type Application/Script
Interface Command line interface
Restrictions to use None
Output data Some alignment results.
Output format SAM
Operating system Unix/Linux
Programming languages C, C++
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes



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  • person_outline Weiguo Liu <>

Publication for Fast and Efficient read Mapper

FEM in publication

PMCID: 5845352
PMID: 29523083
DOI: 10.1186/s12859-018-2094-5

[…] a variety of ngs pipelines. in this paper, we have shown how a succinct hash index can be used as an efficient data structure for read mapping. based on this data structure we have presented fem, a fast and efficient read mapper designed to return all mapping positions of a read in a reference genome sequence with respect to an error threshold. tailored towards the succinct hash index, fem […]

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FEM institution(s)
School of Software, Shandong University, Jinan, Shandong, China; Laboratory for Regional Oceanography and Numerical Modeling, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China; School of Computational Science and Engineering, Georgia Institute of Technology, Atlanta, GA, USA; Johannes Gutenberg University, Mainz, Germany
FEM funding source(s)
Supported by the PPP project from CSC and DAAD, Taishan Scholar program of Shandong Province.

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