miRge specifications


Unique identifier OMICS_10762
Name miRge
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
License GNU General Public License version 3.0
Computer skills Advanced
Version 2.0
Stability Stable
Cutadapt, Bowtie, PERL GD
Maintained Yes


No version available


  • person_outline Marc Halushka

Publications for miRge

miRge citations


Current Research on Non Coding Ribonucleic Acid (RNA)

PMCID: 5748684
PMID: 29206165
DOI: 10.3390/genes8120366

[…] e regulation of the positive transcription elongation factor P-TEFb [].Many miRNA processing pipelines have been established for utilizing HTS data. The major pipelines include: Oasis [], Chimira [], miRge [], and TIGER [], etc. Several tools have also been developed to detect isomiRs such as SeqBuster [], isomiRID [] and DeAnnIso []. One tRNA detection tool, tDRMapper [], is currently available. […]


Uptake of dietary milk miRNAs by adult humans: a validation study

PMCID: 4857747
PMID: 27158459
DOI: 10.5256/f1000research.9200.r13516

[…] pooled samples, representing the five donors at time points 0, 3, 6 and 9 hours post-milk intake. Each sample had between 17.9 and 21 million total reads ( ). We analyzed the sample by three methods: miRge , Chimira release 1.0 , and direct mapping via Bowtie v1.1.2 to mature miRNAs. The percent miRNAs were between 96.6 and 99.1% for samples at T0, T6, and T9. However, at T3, the % aligned miRNAs […]

miRge institution(s)
Department of Pathology, Johns Hopkins University SOM, Baltimore, MD, USA
miRge funding source(s)
Supported by the National Institutes of Health [1R01HL137811] and the American Heart Association [Grant-in-Aid 17GRNT33670405].

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