miRNAKey specifications


Unique identifier OMICS_00364
Name miRNAKey
Software type Pipeline/Workflow
Interface Command line interface, Graphical user interface
Restrictions to use None
Input format FASTA, FASTQ
Output data Differential expression table (excel table), summary report, plots of post-clipping read lengths, plots of multiple-alignment rates, clipped sequence files (adaptor clipped), mapped files and sequence files, separated to mapped and non-mapped reads.
Output format SAM, FASTQ, FASTA
Operating system Unix/Linux, Mac OS
Computer skills Advanced
Stability Stable
Requirements Java, Burrows-Wheeler Alignment Tool, Fastx-Toolkit, the following Perl modules : Math, Spreadsheet, Getopt, GD
Maintained Yes



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  • person_outline Noam Shomron <>
  • person_outline miRNAKey Team <>

Additional information


Publication for miRNAKey

miRNAKey institution(s)
Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, Tel-Aviv, Israel; The Academic College of Tel-Aviv-Yaffo, Tel-Aviv, Israel; International Computer Science Institute, Berkeley, CA, USA; School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel
miRNAKey funding source(s)
Supported by Chief Scientist Office, Ministry of Health, Israel, The Kurz-Lion Foundation, The Tel Aviv University, Faculty of Medicine, Schreiber Foundation; The Wolfson Family Charitable Fund, Israeli Science Foundation (04514831), the National Science Foundation (IIS-071325412); Faculty fellow of the Edmond Safra Bioinformatics program at Tel-Aviv University, Edmond Safra Bioinformatics Program at Tel Aviv University and the Israeli Science Foundation (04514831).

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