CHSalign specifications

Information


Unique identifier OMICS_11662
Interface Web user interface
Restrictions to use None
Input data Two RNA secondary structures where the structures are not annotated with CHS motifs or two RNA secondary structures, both containing CHS motifs annotated manually by the user
Input format Bpseq, CT and Vienna dot-bracket notation
Output data An optimal local alignment between the two RNA structures while taking into account their junctions and coaxial helical stacking in the junctions or an optimal local alignment between the two annotated structures
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Jason T. L. Wang <>

Information


Unique identifier OMICS_11662
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Requirements JDK
Maintained Yes

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Maintainer


  • person_outline Jason T. L. Wang <>

CHSalign article

CHSalign institution(s)
Bioinformatics Laboratory, Department of Computer Science, New Jersey Institute of Technology, Newark, NJ, USA; Department of Chemistry, New York University, NY, New York, USA; Courant Institute of Mathematical Sciences, New York University, NY, New York, USA
CHSalign funding source(s)
This work was supported by National Science Foundation [grant IIS-0707571], and National Institute of General Medical Sciences [grants GM100469 and GM081410].

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