external_loop

Given a RNA secondary structure,it compute external loops in the RNA secondary structure

Provides function for RNA secondary structure plotting, comparison and module mining. Given a RNA secondary structure, you can obtain stem regions, hairpin loops, internal loops, bulge loops and multibranch loops of this RNA structure using this program. They are the basic modules of RNA secondary structure. For each module you get, you can use this program to label the RNA structure with a specific color. You can also use this program to compare two RNA secondary structures to get a score that represents similarity. Reference: Reuter JS, Mathews DH (2010) <doi:10.1186/1471-2105-11-129>.

Zheng HeWei

RNAsmc

RNA Secondary Structure Module Mining, Comparison and Plotting

external_loop function

<dl> <dt>ctFile</dt>
<dd>A RNA secondary structure file in CT format</dd></dl>

Arguments

Author

Internal function for getting external loops in a RNA secondary structure — external_loop

<dl>

 <dt>ctFile</dt>
<dd>A RNA secondary structure file in CT format</dd>

</dl>

external_loop: Internal function for getting external loops in a RNA secondary structure

Description

Usage

Value

Arguments

Author

Examples