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muscle

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see muscle.

Multiple Sequence Alignment with MUSCLE


Bioconductor version: 3.15

MUSCLE performs multiple sequence alignments of nucleotide or amino acid sequences.

Author: Algorithm by Robert C. Edgar. R port by Alex T. Kalinka.

Maintainer: Alex T. Kalinka <alex.t.kalinka at gmail.com>

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

Installation

To install this package, start R (version "4.2") and enter: 


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

BiocManager::install("muscle")

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("muscle")
A guide to using muscle PDF R Script
Reference Manual PDF
NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews Alignment, DataImport, Genetics, MultipleSequenceAlignment, SequenceMatching, Sequencing, Software
Version 3.38.0
In Bioconductor since BioC 3.1 (R-3.2) (9 years)
License Unlimited
Depends Biostrings
Imports
System Requirements
URL http://www.drive5.com/muscle/
See More
Suggests
Linking To
Enhances
Depends On Me
Imports Me geneHapR, ptm
Suggests Me seqmagick
Links To Me
Build Report Build Report

Package Archives

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

Source Package muscle_3.38.0.tar.gz
Windows Binary muscle_3.38.0.zip
macOS Binary (x86_64) muscle_3.38.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/muscle
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/muscle
Bioc Package Browser https://code.bioconductor.org/browse/muscle/
Package Short Url https://bioconductor.org/packages/muscle/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.15 Source Archive