Package: segmentSeq Type: Package Title: Methods for identifying small RNA loci from high-throughput sequencing data Version: 2.47.0 Date: 2025-07-23 Authors@R: c(person("Thomas J.", "Hardcastle", role = "aut"), person("Samuel", "Granjeaud", role = "cre", email = "samuel.granjeaud@inserm.fr", comment=c(ORCID="0000-0001-9245-1535"))) Description: High-throughput sequencing technologies allow the production of large volumes of short sequences, which can be aligned to the genome to create a set of matches to the genome. By looking for regions of the genome which to which there are high densities of matches, we can infer a segmentation of the genome into regions of biological significance. The methods in this package allow the simultaneous segmentation of data from multiple samples, taking into account replicate data, in order to create a consensus segmentation. This has obvious applications in a number of classes of sequencing experiments, particularly in the discovery of small RNA loci and novel mRNA transcriptome discovery. License: GPL-3 LazyLoad: yes Depends: R (>= 3.5.0), methods, baySeq (>= 2.9.0), S4Vectors, parallel, GenomicRanges, ShortRead, stats Suggests: BiocStyle, BiocGenerics, knitr, rmarkdown Imports: Rsamtools, IRanges, Seqinfo, graphics, grDevices, utils, abind biocViews: MultipleComparison, Sequencing, Alignment, DifferentialExpression, QualityControl, DataImport URL: https://github.com/samgg/segmentSeq BugReports: https://github.com/samgg/segmentSeq/issues VignetteBuilder: knitr Config/pak/sysreqs: libbz2-dev libjpeg-dev liblzma-dev libpng-dev xz-utils zlib1g-dev Repository: https://bioc.r-universe.dev Date/Publication: 2026-04-28 12:34:29 UTC RemoteUrl: https://github.com/bioc/segmentSeq RemoteRef: HEAD RemoteSha: f59a1a5508d8914a66a1e0610236ffe90606558f NeedsCompilation: no Packaged: 2026-06-23 06:40:39 UTC; root Author: Thomas J. Hardcastle [aut], Samuel Granjeaud [cre] (ORCID: ) Maintainer: Samuel Granjeaud