RnaViz 2: an improved representation of RNA secondary structure
نویسندگان
چکیده
منابع مشابه
RnaViz 2: an improved representation of RNA secondary structure
SUMMARY RnaViz has been developed to easily create nice, publication quality drawings of RNA secondary structure. RnaViz 2 supports CT, DCSE, and RNAML input formats and improves on many aspects of the first version, notably portability and structure annotation. RnaViz is written using a hybrid programming approach combining pieces written in C and in the scripting language Tcl/Tk, making the p...
متن کاملRnaViz, a program for the visualisation of RNA secondary structure.
RnaViz is a user-friendly, portable, windows-type program for producing publication-quality secondary structure drawings of RNA molecules. Drawings can be created starting from DCSE alignment files if they incorporate structure information or from mfold ct files. The layout of a structure can be changed easily. Display of special structural elements such as pseudo-knots or unformatted areas is ...
متن کاملAsymptotics of RNA Shapes: A precise study of an alternative representation for the RNA secondary structure
Computational molecular biology is concerned with the development of mathematical models and novel algorithms to solve fundamental problems of molecular biology in the post-genome era. A central problem of structural biology concerns the algorithmic prediction of the structure of RNA and protein from only the nucleotide resp. amino acid sequence. In the context of RNA, nucleotide-level thermody...
متن کاملRNA dot plots: an image representation for RNA secondary structure analysis and manipulations.
Dot plots were originally introduced in bioinformatics as dot-containing images used to compare biological sequences and identify regions of close similarity between them. In addition to similarity, dot plots were extended to possibly represent interactions between building blocks of biological sequences, where the dots can vary in size or color according to desired features. In this survey, we...
متن کاملRNA Secondary Structure Alignment Based on Stem Representation
The comparison methods for RNA or protein molecules are important and basic tools in molecular biology. So far, most comparison methods, such as sequence alignment, are only applicable to the primary structures of biomolecules. Indeed, the functions of biomolecules have close relationship in their structures. The RNA secondary structure alignment problem is to align two given RNA structures to ...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Bioinformatics
سال: 2003
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/19.2.299