LowMACA

DOI: 10.18129/B9.bioc.LowMACA    

LowMACA - Low frequency Mutation Analysis via Consensus Alignment

Bioconductor version: Release (3.8)

The LowMACA package is a simple suite of tools to investigate and analyze the mutation profile of several proteins or pfam domains via consensus alignment. You can conduct an hypothesis driven exploratory analysis using our package simply providing a set of genes or pfam domains of your interest.

Author: Stefano de Pretis , Giorgio Melloni

Maintainer: Stefano de Pretis <ste.depo at gmail.com>, Giorgio Melloni <melloni.giorgio at gmail.com>

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

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("LowMACA", version = "3.8")

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("LowMACA")

 

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PDF   Reference Manual
Text   README
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Details

biocViews Alignment, DataImport, MultipleSequenceAlignment, SequenceMatching, Sequencing, Software, SomaticMutation, WholeGenome
Version 1.12.0
In Bioconductor since BioC 3.1 (R-3.2) (3.5 years)
License GPL-3
Depends R (>= 2.10)
Imports cgdsr, parallel, stringr, reshape2, data.table, RColorBrewer, methods, LowMACAAnnotation, BiocParallel, motifStack, Biostrings, httr
LinkingTo
Suggests BiocStyle, knitr, rmarkdown
SystemRequirements clustalo, gs, perl
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package LowMACA_1.12.0.tar.gz
Windows Binary LowMACA_1.12.0.zip
Mac OS X 10.11 (El Capitan) LowMACA_1.12.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/LowMACA
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/LowMACA
Package Short Url http://bioconductor.org/packages/LowMACA/
Package Downloads Report Download Stats

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