Package: MultiOmicsCancer 0.99.2

Maryam Emami

MultiOmicsCancer: Integrative Multi-Omics Analysis for Pan-Cancer Research

A modular and cancer-agnostic framework for integrative analysis of multi-omics data in cancer research. The package provides tools for differential methylation analysis, gene expression analysis, miRNA profiling, multi-omics integration, survival analysis, and biomarker discovery. It supports data from TCGA, cBioPortal, GEO, and user-provided datasets, and is designed to work across any cancer type.

Authors:Maryam Emami [aut, cre]

MultiOmicsCancer_0.99.2.tar.gz
MultiOmicsCancer_0.99.2.zip(r-4.7-any)MultiOmicsCancer_0.99.2.zip(r-4.6-any)MultiOmicsCancer_0.99.2.zip(r-4.5-any)
MultiOmicsCancer_0.99.2.tgz(r-4.6-any)MultiOmicsCancer_0.99.2.tgz(r-4.5-any)
MultiOmicsCancer_0.99.2.tar.gz(r-4.7-any)MultiOmicsCancer_0.99.2.tar.gz(r-4.6-any)
MultiOmicsCancer_0.99.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
MultiOmicsCancer/json (API)

# Install 'MultiOmicsCancer' in R:

install.packages('MultiOmicsCancer', repos = c('https://biocstaging.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/maryam6770/multiomicscancer/issues

On CRAN:

epigenetics dnamethylation geneexpression transcriptomics differentialexpression differentialmethylation multiplecomparison survival

3.18 score 1 scripts 11 exports 122 dependencies

Last updated from:9cf1d79d06. Checks:1 WARNING, 9 OK. Indexed: yes.

Target	Result	Time
bioc-checks	WARNING	222
linux-devel	OK	214
source / vignettes	OK	510
linux-release	OK	211
macos-release	OK	151
macos-oldrel	OK	144
windows-devel	OK	2028
windows-release	OK	2015
windows-oldrel	OK	2022
wasm-release	OK	169

Exports:analyze_expression analyze_methylation analyze_survival bootstrap_validate_ims build_ims compare_ims_clinical estimate_purity integrate_meth_expr load_cancer_data plot_cancer validate_proteins

Dependencies:abind askpass backports BH Biobase BiocBaseUtils BiocGenerics BiocParallel boot broom car carData cli codetools colorspace commonmark corrplot cowplot cpp11 curl DelayedArray Deriv DESeq2 doBy dplyr exactRankTests farver forecast formatR Formula fracdiff futile.logger futile.options generics GenomicRanges ggplot2 ggpubr ggrepel ggsci ggsignif ggtext glue gridExtra gridtext gtable httr2 IRanges isoband jpeg labeling lambda.r lattice lifecycle limma litedown lme4 lmtest locfit magrittr markdown MASS Matrix MatrixGenerics MatrixModels matrixStats maxstat mgcv minqa modelr MultiAssayExperiment mvtnorm nlme nloptr nnet numDeriv openssl pbkrtest pillar pkgconfig png polynom purrr quantreg R6 rbibutils RColorBrewer Rcpp RcppArmadillo RcppEigen Rdpack reformulas rlang rstatix S4Arrays S4Vectors S7 scales Seqinfo snow SparseArray SparseM statmod stringi stringr SummarizedExperiment survival survminer sys tibble tidyestimate tidyr tidyselect timeDate urca utf8 vctrs viridisLite withr xfun xml2 XVector zoo

Introduction to MultiOmicsCancer

Rendered fromMultiOmicsCancer-Introduction.Rmdusingknitr::rmarkdown

Last update: 2026-10-20
Started: 2026-09-20

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Differential Gene Expression Analysis for Pan-Cancer Studies	analyze_expression
Differential Methylation Analysis for Pan-Cancer Studies	analyze_methylation
Survival Analysis for Pan-Cancer Studies	analyze_survival
Nested Bootstrap Validation for IMS	bootstrap_validate_ims
Build an Immune Methylation Score (IMS)	build_ims
Compare IMS with Clinical Variables	compare_ims_clinical
Estimate Tumor Purity and Immune Score	estimate_purity
Integrate Methylation and Gene Expression Data	integrate_meth_expr
Load Multi-Omics Cancer Data	load_cancer_data
Visualization Functions for Pan-Cancer Multi-Omics Analysis	plot_cancer
Validate Genes at Protein Level	validate_proteins