Package: phantasus 1.27.0

Alexey Sergushichev

phantasus: Visual and interactive gene expression analysis

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.

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

phantasus_1.27.0.tar.gz
phantasus_1.27.0.zip(r-4.5)phantasus_1.27.0.zip(r-4.4)phantasus_1.27.0.zip(r-4.3)
phantasus_1.27.0.tgz(r-4.4-any)phantasus_1.27.0.tgz(r-4.3-any)
phantasus_1.27.0.tar.gz(r-4.5-noble)phantasus_1.27.0.tar.gz(r-4.4-noble)
phantasus_1.27.0.tgz(r-4.4-emscripten)phantasus_1.27.0.tgz(r-4.3-emscripten)
phantasus.pdf |phantasus.html✨
phantasus/json (API)
NEWS

# Install 'phantasus' in R:
install.packages('phantasus', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/ctlab/phantasus/issues

Datasets:
  • es - Example dataset
  • fgseaExample - Example pathway data.frame for fgsea tool

On BioConductor:phantasus-1.25.6(bioc 3.20)phantasus-1.24.0(bioc 3.19)

geneexpressionguivisualizationdatarepresentationtranscriptomicsrnaseqmicroarraynormalizationclusteringdifferentialexpressionprincipalcomponentimmunooncology

7.75 score 42 stars 15 scripts 470 downloads 10 exports 155 dependencies

Last updated 23 days agofrom:57b2ec9ac9. Checks:OK: 1 NOTE: 3 ERROR: 3. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 30 2024
R-4.5-winERROROct 31 2024
R-4.5-linuxNOTEOct 31 2024
R-4.4-winERROROct 31 2024
R-4.4-macNOTEOct 31 2024
R-4.3-winERROROct 31 2024
R-4.3-macNOTEOct 31 2024

Exports:generatePreloadedSessiongetESgetGDSgetGSEgetPhantasusConfread.gctreparseCachedESsservePhantasussetupPhantasuswrite.gct

Dependencies:abindAnnotationDbiapeglmaskpassassertthatbase64encbbmlebdsmatrixBHBiobaseBiocGenericsBiocParallelBiostringsbitbit64blobbrewcachemccaPPclicliprcodacodetoolscolorspaceconfigcowplotcpp11crayoncurldata.tableDBIDelayedArrayDEoptimRDESeq2digestdplyredgeRemdbookevaluatefansifarverfastmapfastmatchfgseaformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesGEOqueryggplot2gluegtablehighrhmshtmltoolshttpuvhttrhttr2IRangesisobandjsonliteKEGGRESTknitrlabelinglambda.rlaterlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellmvtnormnlmenumDerivopencpuopensslpcaPPphantasusLitepheatmappillarpkgconfigplogrplyrpngprettyunitsprogresspromisesprotolitepurrrR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppRcppArmadilloRcppEigenRcppNumericalreadrremotesrentrezrhdf5rhdf5clientrhdf5filtersRhdf5librjsonrlangrobustbaseRookRSQLitervestS4ArraysS4VectorsscalesselectrsnowSparseArraystatmodstringistringrSummarizedExperimentsvglitesyssystemfontstibbletidyrtidyselecttzdbUCSC.utilsutf8vctrsviridisLitevroomwebutilswithrxfunXMLxml2XVectoryamlzipzlibbioc

Using Phantasus application

Rendered fromphantasus-tutorial.Rmdusingknitr::rmarkdownon Oct 30 2024.

Last update: 2024-04-22
Started: 2017-07-26