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phantasus

Visual and interactive gene expression analysis

Bioconductor version: 3.23 · Package version: 1.32.0

Phantasus is a web-application for visual and interactive gene expression analysis. Phantasus is based on Morpheus – a web-based software for heatmap visualisation and analysis, which was integrated with an R environment via OpenCPU API. Aside from basic visualization and filtering methods, R-based methods such as k-means clustering, principal component analysis or differential expression analysis with limma package are supported.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("phantasus")

Details

MaintainerAlexey Sergushichev <alsergbox@gmail.com>
AuthorMaxim Kleverov [aut], Daria Zenkova [aut], Vladislav Kamenev [aut], Margarita Sablina [ctb], Maxim Artyomov [aut], Alexey Sergushichev [aut, cre]
LicenseMIT + file LICENSE
URLhttps://alserglab.wustl.edu/phantasus
Bug Reportshttps://github.com/ctlab/phantasus/issues
Downloads rank343
Source branchRELEASE_3_23
biocViewsClustering, DataRepresentation, DifferentialExpression, GUI, GeneExpression, ImmunoOncology, Microarray, Normalization, PrincipalComponent, RNASeq, Software, Transcriptomics, Visualization

Documentation

Download

Dependencies

Depends: R (>= 4.3)

Imports: ggplot2, protolite, Biobase, GEOquery, htmltools, httpuv, jsonlite, limma, edgeR, opencpu, assertthat, methods, httr, rhdf5, utils, parallel, stringr, fgsea (>= 1.9.4), svglite, gtable, stats, Matrix, pheatmap, scales, ccaPP, grid, grDevices, AnnotationDbi, DESeq2, data.table, curl, apeglm, config (>= 0.3.2), rhdf5client (>= 1.25.1), yaml, fs, phantasusLite, XML

Suggests: testthat, BiocStyle, knitr, rmarkdown, org.Hs.eg.db, org.Mm.eg.db