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rSWeeP

This is the development version of rSWeeP; for the stable release version, see rSWeeP.

Functions to creation of low dimensional comparative matrices of Amino Acid Sequence occurrences


Bioconductor version: Development (3.19)

The SWeeP method was developed to favor the analizes between amino acids sequences and to assist alignment free phylogenetic studies. This method is based on the concept of sparse words, which is applied in the scan of biological sequences and its the conversion in a matrix of ocurrences. Aiming the generation of low dimensional matrices of Amino Acid Sequence occurrences.

Author: Danrley R. Fernandes [com, cre, aut]

Maintainer: Danrley R. Fernandes <DanrleyRF at gmail.com>

Citation (from within R, enter citation("rSWeeP")):

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("rSWeeP")

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("rSWeeP")
rSWeeP HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Alignment, Genetics, Sequencing, Software, StatisticalMethod, SupportVectorMachine, Technology
Version 1.15.0
In Bioconductor since BioC 3.11 (R-4.0) (4 years)
License GPL-3
Depends R (>= 4.0)
Imports pracma, stats
System Requirements
URL
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Suggests Biostrings, methods, knitr, rmarkdown, BiocStyle
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Package Archives

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

Source Package rSWeeP_1.15.0.tar.gz
Windows Binary rSWeeP_1.15.0.zip
macOS Binary (x86_64) rSWeeP_1.15.0.tgz
macOS Binary (arm64) rSWeeP_1.15.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/rSWeeP
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rSWeeP
Bioc Package Browser https://code.bioconductor.org/browse/rSWeeP/
Package Short Url https://bioconductor.org/packages/rSWeeP/
Package Downloads Report Download Stats