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Figure 3 | BMC Bioinformatics

Figure 3

From: MiRFinder: an improved approach and software implementation for genome-wide fast microRNA precursor scans

Figure 3

The pipeline of the miRFinder. It consists of 5 steps: (1) Smith-Waterman like algorithm searches the genome of short hairpins; (2) The sequence is folded by RNALfold (Hofacker et al., 2004) to get the local structure; (3) the extended good loops is picked out by schLoop; (4) the good loops are re-folded by RNAfold (Zuker & Stiegler, 1981) to get the MFE and secondary structure; (5) the Punish program calculates the punish score of each paired sequence segments; (6) the sequence is then predicted to be miRNAs or non-miRNA hairpins using the SVM (support vector machine) classifier.

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BMC Bioinformatics

ISSN: 1471-2105

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