LowMACA
This package is for version 3.7 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see LowMACA.
LowMACA - Low frequency Mutation Analysis via Consensus Alignment
Bioconductor version: 3.7
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("LowMACA")):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("LowMACA")
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")| Bioconductor style for HTML documents | HTML | R Script |
| Reference Manual | ||
| README | Text | |
| NEWS | Text |
Details
| biocViews | Alignment, DataImport, MultipleSequenceAlignment, SequenceMatching, Sequencing, Software, SomaticMutation, WholeGenome |
| Version | 1.12.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (9 years) |
| License | GPL-3 |
| Depends | R (>= 2.10) |
| Imports | cgdsr, parallel, stringr, reshape2, data.table, RColorBrewer, methods, LowMACAAnnotation, BiocParallel, motifStack, Biostrings, httr |
| System Requirements | clustalo, gs, perl |
| URL |
See More
| Suggests | BiocStyle, knitr, rmarkdown |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | 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 | https://bioconductor.org/packages/LowMACA/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.7 | Source Archive |