Faculty of Information Technology, BUT

Product Details

R/Bioconductor package for identification of triplex-forming sequences

Created: 2013

Czech title
R/Bioconductor balíček pro identifikaci sekvencí tvořících triplex
Type
software
License
optional - free
Authors
Hon Jiří, Ing. (FIT BUT)
Lexa Matej, Ing., Ph.D. (FI MUNI)
Martínek Tomáš, Ing., Ph.D. (DCSY FIT BUT)
Rajdl Kamil, Mgr. (FI MUNI)
Keywords
H-DNA; R/Bioconductor; pattern matching; dynamic programming; triplex; searching; annotation
Description
This package provides functions for identification and visualization of potential intramolecular triplex patterns in DNA sequence. The main functionality is to detect the positions of subsequences capable of folding into an intramolecular triplex (H-DNA) in a much larger sequence. The potential H-DNA (triplexes) should be made of as many cannonical nucleotide triplets as possible. The package includes visualization showing the exact base-pairing in 1D, 2D or 3D.
Location
Licence
Free software under the terms of BSD license (see http://www.opensource.org/licenses/bsd-license.php).
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