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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("LowMACA")
In most cases, you don't need to download the package archive at all.
LowMACA
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see LowMACA.
LowMACA - Low frequency Mutation Analysis via Consensus Alignment
Bioconductor version: 3.4
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 and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("LowMACA")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("LowMACA")
| R Script | LowMACA | |
| Reference Manual | ||
| Text | README | |
| Text | NEWS |
Details
| biocViews | Alignment, DataImport, MultipleSequenceAlignment, SequenceMatching, Sequencing, Software, SomaticMutation, WholeGenome |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.1 (R-3.2) (2 years) |
| License | GPL-3 |
| Depends | R (>= 2.10) |
| Imports | cgdsr, parallel, stringr, reshape2, data.table, RColorBrewer, methods, LowMACAAnnotation, BiocParallel, motifStack, Biostrings |
| LinkingTo | |
| Suggests | BiocStyle, knitr, rmarkdown |
| SystemRequirements | clustalo, gs, perl |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | LowMACA_1.6.0.tar.gz |
| Windows Binary | LowMACA_1.6.0.zip |
| Mac OS X 10.9 (Mavericks) | LowMACA_1.6.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/LowMACA/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/LowMACA/ |
| Package Downloads Report | Download Stats |
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