The applications listed here are available for use in the Discovery Environment and are documented in: Discovery Environment Manual.

Discovery Environment Applications List

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miRanda 3.3a

 

miRanda is an algorithm for the detection of potential microRNA target sites in genomic sequences. miRanda reads RNA sequences (such as microRNAs) from file1 and genomic DNA/RNA sequences from file2. Both of these files should be in FASTA format.

Quick Start


Test Data

 

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Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> miranda

 

Input File(s)

Use these files as input:

  • miRNA.fa as the micro-RNA fasta file
  • mRNA_100.fa as the genomic DNA/RNA fasta

Parameters Used in App

Use only default parameters.

Output File(s)

When run with the settings as files above you should get a file called 'predictions.txt'. 

Tool Source for App

https://github.com/mskcc/miRanda

 

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