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A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic alterations

Bioconductor version: Release (3.19)

MesKit provides commonly used analysis and visualization modules based on mutational data generated by multi-region sequencing (MRS). This package allows to depict mutational profiles, measure heterogeneity within or between tumors from the same patient, track evolutionary dynamics, as well as characterize mutational patterns on different levels. Shiny application was also developed for a need of GUI-based analysis. As a handy tool, MesKit can facilitate the interpretation of tumor heterogeneity and the understanding of evolutionary relationship between regions in MRS study.

Author: Mengni Liu [aut, cre] , Jianyu Chen [aut, ctb] , Xin Wang [aut, ctb]

Maintainer: Mengni Liu <niinleslie at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


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


To view documentation for the version of this package installed in your system, start R and enter:

Analyze and Visualize Multi-region Whole-exome Sequencing Data HTML R Script
Reference Manual PDF


biocViews Software
Version 1.14.0
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License GPL-3
Depends R (>= 4.0.0)
Imports methods, data.table, Biostrings, dplyr, tidyr (>= 1.0.0), ape (>= 5.4.1), ggrepel, pracma, ggridges, AnnotationDbi, IRanges, circlize, cowplot, mclust, phangorn, ComplexHeatmap(>= 1.9.3), ggplot2, RColorBrewer, grDevices, stats, utils, S4Vectors
System Requirements
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Suggests shiny, knitr, rmarkdown, BSgenome.Hsapiens.UCSC.hg19(>= 1.4.0),, clusterProfiler, TxDb.Hsapiens.UCSC.hg19.knownGene
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Imports Me CaMutQC
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Follow Installation instructions to use this package in your R session.

Source Package MesKit_1.14.0.tar.gz
Windows Binary
macOS Binary (x86_64) MesKit_1.14.0.tgz
macOS Binary (arm64) MesKit_1.14.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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