Introduction | Getting started | Create an initial state for gene expression visualization using iSEEinit() | Create an initial state for feature sets exploration using iSEEnrich() | Create an initial state for marker gene exploration using iSEEmarker() | Visualize a preview of the initial configurations with view_initial_tiles() | Visualize network connections between panels with view_initial_network() | Merge different initial configurations with glue_initials() | Related work | Session info
Package: iSEEfier 1.9.0
Najla Abassi
iSEEfier: Streamlining the creation of initial states for starting an iSEE instance
iSEEfier provides a set of functionality to quickly and intuitively create, inspect, and combine initial configuration objects. These can be conveniently passed in a straightforward manner to the function call to launch iSEE() with the specified configuration. This package currently works seamlessly with the sets of panels provided by the iSEE and iSEEu packages, but can be extended to accommodate the usage of any custom panel (e.g. from iSEEde, iSEEpathways, or any panel developed independently by the user).
Authors:
iSEEfier_1.9.0.tar.gz
iSEEfier_1.9.0.zip(r-4.7)iSEEfier_1.9.0.zip(r-4.6)iSEEfier_1.9.0.zip(r-4.5)
iSEEfier_1.9.0.tgz(r-4.6-any)iSEEfier_1.9.0.tgz(r-4.5-any)
iSEEfier_1.9.0.tar.gz(r-4.7-any)iSEEfier_1.9.0.tar.gz(r-4.6-any)
iSEEfier_1.9.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
iSEEfier/json (API)
| # Install 'iSEEfier' in R: |
| install.packages('iSEEfier', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/najlaabassi/iseefier/issues
On BioConductor:iSEEfier-1.9.0(bioc 3.24)iSEEfier-1.8.0(bioc 3.23)
cellbasedassaysclusteringdimensionreductionfeatureextractionguigeneexpressionimmunooncologyshinyappssinglecellsoftwaretranscriptiontranscriptomicsvisualization
Last updated from:5c275bebae. Checks:1 NOTE, 7 WARNING, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 312 | ||
| linux-devel-x86_64 | WARNING | 578 | ||
| source / vignettes | OK | 434 | ||
| linux-release-x86_64 | WARNING | 524 | ||
| macos-release-arm64 | WARNING | 486 | ||
| macos-oldrel-arm64 | WARNING | 298 | ||
| windows-devel | WARNING | 1970 | ||
| windows-release | WARNING | 1962 | ||
| windows-oldrel | WARNING | 1768 | ||
| wasm-release | OK | 269 |
Exports:glue_initialsiSEEinitiSEEmarkeriSEEnrichview_initial_networkview_initial_tiles
Dependencies:abindbase64encBiobaseBiocBaseUtilsBiocGenericsbslibcachemcirclizecliclueclustercodetoolscolorspacecolourpickercommonmarkComplexHeatmapcpp11crayoncrosstalkDelayedArraydigestdoParallelDTevaluatefarverfastmapfontawesomeforeachfsgenericsGenomicRangesGetoptLongggplot2ggrepelGlobalOptionsgluegtablehexbinhighrhtmltoolshtmlwidgetshttpuvigraphIRangesiSEEiSEEhexiSEEuisobanditeratorsjquerylibjsonliteknitrlabelinglaterlatticelazyevallifecyclelistviewermagrittrMatrixMatrixGenericsmatrixStatsmemoisemgcvmimeminiUInlmeotelpkgconfigpngpromisesR6rappdirsRColorBrewerRcpprintrojsrjsonrlangrmarkdownS4ArraysS4VectorsS7sassscalesSeqinfoshapeshinyshinyAceshinydashboardshinyjsshinyWidgetsSingleCellExperimentsourcetoolsSparseArraySummarizedExperimenttinytexvctrsviporviridisLitevisNetworkwithrxfunxtableXVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Constant values used throughout iSEEfier | constants-iSEEfier iSEE_panel_colors |
| Glue together initial objects into one | glue_initials |
| iSEEinit: Create an initial state of an iSEE instance for gene expression visualization | iSEEinit |
| iSEEmarker | iSEEmarker |
| iSEEnrich | iSEEnrich |
| View an initial object as a network | view_initial_network |
| View an initial object as a set of tiles | view_initial_tiles |
