Bioconductor - maftools

Bioconductor - maftools
Bioconductor 3.22
Software Packages
maftools
maftools
This is the
released
version of maftools; for the devel version, see
maftools
Summarize, Analyze and Visualize MAF Files
DOI:
10.18129/B9.bioc.maftools
Bioconductor version:
Release (3.22)
Analyze and visualize Mutation Annotation Format (MAF) files from large scale sequencing studies. This package provides various functions to perform most commonly used analyses in cancer genomics and to create feature rich customizable visualzations with minimal effort.
Author:
Anand Mayakonda [aut, cre]
ORCID: 0000-0003-1162-687X
Maintainer:
Anand Mayakonda
Citation (from within R, enter
citation("maftools")
):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")

BiocManager::install("maftools")
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("maftools")
01: Summarize, Analyze, and Visualize MAF Files
HTML
R Script
02: Customizing oncoplots
HTML
R Script
03: Cancer report
HTML
R Script
04: Copy number analysis
HTML
R Script
Reference Manual
PDF
NEWS
Text
LICENSE
Text
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
Classification
DNASeq
DataRepresentation
DriverMutation
FeatureExtraction
FunctionalGenomics
Sequencing
Software
SomaticMutation
Survival
VariantAnnotation
Visualization
Version
2.26.0
In Bioconductor since
BioC 3.4 (R-3.3) (9.5 years)
License
MIT + file
LICENSE
Depends
R (>= 4.1.0)
Imports
data.table
, grDevices, methods,
RColorBrewer
Rhtslib
survival
DNAcopy
pheatmap
System Requirements
GNU make, curl
URL
Bug Reports
See More
Suggests
berryFunctions
Biostrings
BSgenome
BSgenome.Hsapiens.UCSC.hg19
GenomicRanges
IRanges
knitr
mclust
MultiAssayExperiment
NMF
R.utils
RaggedExperiment
rmarkdown
S4Vectors
Linking To
Rhtslib
Enhances
Depends On Me
GNOSIS
Imports Me
CaMutQC
CIMICE
katdetectr
musicatk
aplotExtra
Rediscover
sigminer
SMDIC
ssMutPA
Suggests Me
GenomicDataCommons
MultiAssayExperiment
survtype
TCGAbiolinks
Links To Me
Build Report
Build Report
Package Archives
Follow
Installation
instructions to use this package in your R session.
Source Package
maftools_2.26.0.tar.gz
Windows Binary (x86_64)
maftools_2.26.0.zip
macOS Binary (x86_64)
maftools_2.26.0.tgz
macOS Binary (arm64)
maftools_2.26.0.tgz
Source Repository
git clone https://git.bioconductor.org/packages/maftools
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/maftools
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