Maintainer Bioconductor Package Maintainer

Title Representation and manipulation of genomic intervals Description The ability to efficiently store genomic annotations and alignments is playing a central role when it comes to analyze high-throughput sequencing data (a.k.a. NGS data). The package defines general purpose containers for storing genomic intervals as well as more specialized containers for storing alignments against a reference genome. Version 1.12.

Enhances Rmpi License Artistic-2.0

Title String objects representing biological sequences, and matching algorithms Description Memory efficient string containers, string matching algorithms, and other utilities, for fast manipulation of large biological sequences or sets of sequences. Version 2.28.

Suggests rgl (> = 0.93.932), BSgenome.Celegans.UCSC.ce10, rtracklayer,GenomeGraphs

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

Enhances Rmpi, parallel

Title Classes and methods for high-throughput short-read sequencing data. Version 1.16.