phantasus
This is thereleased version of phantasus; for the devel version, seephantasus.
Visual and interactive gene expression analysis
Bioconductor version: Release (3.22)
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: Maxim Kleverov [aut], Daria Zenkova [aut], Vladislav Kamenev [aut], Margarita Sablina [ctb], Maxim Artyomov [aut], Alexey Sergushichev [aut, cre]
Maintainer: Alexey Sergushichev <alsergbox at gmail.com>
citation("phantasus")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("phantasus")For older versions of R, please refer to the appropriateBioconductor 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 | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Clustering,DataRepresentation,DifferentialExpression,GUI,GeneExpression,ImmunoOncology,Microarray,Normalization,PrincipalComponent,RNASeq,Software,Transcriptomics,Visualization |
| Version | 1.30.0 |
| In Bioconductor since | BioC 3.7 (R-3.5) (7.5 years) |
| License | MIT + fileLICENSE |
| Depends | R (>= 4.3) |
| 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,apeglm,tidyr,config (>= 0.3.2),rhdf5client(>= 1.25.1),yaml,fs,phantasusLite,XML |
| System Requirements | |
| URL | https://alserglab.wustl.edu/phantasus |
| Bug Reports | https://github.com/ctlab/phantasus/issues |
See More
| Suggests | testthat,BiocStyle,knitr,rmarkdown,org.Hs.eg.db,org.Mm.eg.db |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | phantasus_1.30.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | phantasus_1.30.0.tgz |
| macOS Binary (arm64) | phantasus_1.30.0.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 |
| Old Source Packages for BioC 3.22 | Source Archive |