Welcome to the new bioconductor.org!

phantasus

This is the development version of phantasus; for the stable release version, see phantasus.

Visual and interactive gene expression analysis


Bioconductor version: Development (3.19)

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.

Author: Daria Zenkova [aut], Vladislav Kamenev [aut], Rita Sablina [ctb], Maxim Kleverov [ctb], Maxim Artyomov [aut], Alexey Sergushichev [aut, cre]

Maintainer: Alexey Sergushichev <alsergbox at gmail.com>

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

Installation

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


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("phantasus")

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("phantasus")
Using phantasus application HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Clustering, DataRepresentation, DifferentialExpression, GUI, GeneExpression, ImmunoOncology, Microarray, Normalization, PrincipalComponent, RNASeq, Software, Transcriptomics, Visualization
Version 1.23.2
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License MIT + file LICENSE
Depends R (>= 3.5)
Imports ggplot2, protolite, Biobase, GEOquery, Rook, 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
System Requirements
URL https://ctlab.itmo.ru/phantasus https://artyomovlab.wustl.edu/phantasus
Bug Reports https://github.com/ctlab/phantasus/issues
See More
Suggests testthat, BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package phantasus_1.23.2.tar.gz
Windows Binary phantasus_1.23.2.zip
macOS Binary (x86_64) phantasus_1.23.2.tgz
macOS Binary (arm64) phantasus_1.23.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/phantasus
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/phantasus
Bioc Package Browser https://code.bioconductor.org/browse/phantasus/
Package Short Url https://bioconductor.org/packages/phantasus/
Package Downloads Report Download Stats