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Bioconductor - SynExtend

SynExtend

This is the released version of SynExtend; for the devel version, see SynExtend.

Tools for Working With Synteny Objects

Bioconductor version: Release (3.21)

Shared order between genomic sequences provide a great deal of information. Synteny objects produced by the R package DECIPHER provides quantitative information about that shared order. SynExtend provides tools for extracting information from Synteny objects.

Author: Nicholas Cooley [aut, cre] ORCID: 0000-0002-6029-304X , Aidan Lakshman [aut, ctb] ORCID: 0000-0002-9465-6785 , Adelle Fernando [ctb], Erik Wright [aut]

Maintainer: Nicholas Cooley <npc19 at pitt.edu>

Citation (from within R, enter citation("SynExtend")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("SynExtend")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("SynExtend")
Details biocViews Clustering, ComparativeGenomics, DataImport, Genetics, Software Version 1.20.2 In Bioconductor since BioC 3.11 (R-4.0) (5 years) License GPL-3 Depends R (>= 4.4.0), DECIPHER(>= 2.28.0) Imports methods, Biostrings, S4Vectors, IRanges, utils, stats, parallel, graphics, grDevices, RSQLite, DBI System Requirements URL https://github.com/npcooley/SynExtend Bug Reports https://github.com/npcooley/SynExtend/issues/new/ See More Package Archives

Follow Installation instructions to use this package in your R session.

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