DOI: 10.18129/B9.bioc.maftools    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see maftools.

Summarize, Analyze and Visualize MAF Files

Bioconductor version: 3.14

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]

Maintainer: Anand Mayakonda <anand_mt at>

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


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HTML R Script 01: Summarize, Analyze, and Visualize MAF Files
HTML R Script 02: Customizing oncoplots
HTML R Script 03: Somatic status of cancer hotspots
PDF   Reference Manual
Text   NEWS


biocViews Classification, DNASeq, DataRepresentation, DriverMutation, FeatureExtraction, FunctionalGenomics, Sequencing, Software, SomaticMutation, Survival, VariantAnnotation, Visualization
Version 2.10.05
In Bioconductor since BioC 3.4 (R-3.3) (5.5 years)
License MIT + file LICENSE
Depends R (>= 3.3)
Imports data.table, grDevices, methods, RColorBrewer, Rhtslib, survival
LinkingTo Rhtslib, zlibbioc
Suggests berryFunctions, Biostrings, BSgenome, BSgenome.Hsapiens.UCSC.hg19, GenomicRanges, IRanges, knitr, mclust, MultiAssayExperiment, NMF, R.utils, RaggedExperiment, rmarkdown, S4Vectors, pheatmap, curl
SystemRequirements GNU make
Depends On Me MAFDash
Imports Me CIMICE, musicatk, TCGAbiolinksGUI, TCGAWorkflow
Suggests Me MultiAssayExperiment, survtype, TCGAbiolinks
Links To Me
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