This is the Linux app named miRDP2 whose latest release can be downloaded as test_data.tar.gz. It can be run online in the free hosting provider OnWorks for workstations.
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miRDP2
DESCRIPTION:
miRDeep-P2 (miRDP2) is developed to accurately and fast analyze microRNAs (miRNAs) transcriptome in plants. It is adopted from miRDeep-P (miRDP) with new strategies and overhauled algorithm. We have tested miRDP2 to analyze miRNA transcriptomes in such plants with gradually increased genome size as Arabidopsis, rice, tomato, maize and wheat. Compared with miRDeep-P and several other computational tools, miRDP2 processed NGS data with superior speed. By incorporating newly updated plant miRNA annotation criteria, the accuracy of miRDP2 is also markedly improved. Our results demonstrate miRDP2 as a fast and accurate tool for analyzing the miRNA transcriptome in plants.
Reference: https://doi.org/10.1093/bioinformatics/bty972
Features
- small RNA
- microRNA(miRNA）
- Next Generation Sequencing (NGS)
- Perl
Audience
Science/Research
Programming Language
Perl
Database Environment
Perl DBI/DBD
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/mirdp2/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.