LowMACA

DOI: 10.18129/B9.bioc.LowMACA    

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

LowMACA - Low frequency Mutation Analysis via Consensus Alignment

Bioconductor version: Development (3.16)

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>

Installation

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

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

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

BiocManager::install("LowMACA")

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

Documentation

PDF		Reference Manual

Details

biocViews	Alignment, DataImport, MultipleSequenceAlignment, SequenceMatching, Sequencing, Software, SomaticMutation, WholeGenome
Version	1.27.0
In Bioconductor since	BioC 3.1 (R-3.2) (7.5 years)
License	GPL-3
Depends	R (>= 2.10)
Imports	cgdsr, parallel, stringr, reshape2, data.table, RColorBrewer, methods, LowMACAAnnotation, BiocParallel, motifStack, Biostrings, httr, grid, gridBase
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown
SystemRequirements	clustalo, gs, perl
Enhances
URL
Depends On Me
Imports Me
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Build Report

Package Archives

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

Source Package
Windows Binary
macOS 10.13 (High Sierra)
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	https://bioconductor.org/packages/LowMACA/
Package Downloads Report	Download Stats