Background: Two central problems in computational biology are the determination of the alignment and phylogeny of a set of biological sequences. The traditional approach to this p...
During the last few years new functionalities of RNA have been discovered, renewing the need for computational tools for their analysis. To this respect, multiple sequence alignmen...
Background: High quality sequence alignments of RNA and DNA sequences are an important prerequisite for the comparative analysis of genomic sequence data. Nucleic acid sequences, ...
Roman R. Stocsits, Ivo L. Hofacker, Claudia Fried,...
In this paper we present a parallel implementation of T–Coffee — a widely used multiple sequence alignment package. Our software supports a majority of options provided by the...
Jaroslaw Zola, Xiao Yang, Adrian Rospondek, Sriniv...
Background: Pairwise stochastic context-free grammars (Pair SCFGs) are powerful tools for evolutionary analysis of RNA, including simultaneous RNA sequence alignment and secondary...