iSEEfier

Streamlining the creation of initial states for starting an iSEE instance


Bioconductor version: Release (3.19)

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).

Author: Najla Abassi [aut, cre] , Federico Marini [aut]

Maintainer: Najla Abassi <abassi.nejla96 at gmail.com>

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

Installation

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


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

BiocManager::install("iSEEfier")

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("iSEEfier")
iSEEfier_userguide HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews CellBasedAssays, Clustering, DimensionReduction, FeatureExtraction, GUI, GeneExpression, ImmunoOncology, ShinyApps, SingleCell, Software, Transcription, Transcriptomics, Visualization
Version 1.0.0
In Bioconductor since BioC 3.19 (R-4.4) (< 6 months)
License MIT + file LICENSE
Depends
Imports iSEE, iSEEu, methods, ggplot2, igraph, rlang, stats, SummarizedExperiment, SingleCellExperiment, visNetwork, BiocBaseUtils
System Requirements
URL https://github.com/NajlaAbassi/iSEEfier
Bug Reports https://github.com/NajlaAbassi/iSEEfier/issues
See More
Suggests knitr, rmarkdown, scater, scRNAseq, org.Mm.eg.db, scuttle, BiocStyle, testthat (>= 3.0.0)
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 iSEEfier_1.0.0.tar.gz
Windows Binary iSEEfier_1.0.0.zip
macOS Binary (x86_64) iSEEfier_1.0.0.tgz
macOS Binary (arm64) iSEEfier_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/iSEEfier
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/iSEEfier
Bioc Package Browser https://code.bioconductor.org/browse/iSEEfier/
Package Short Url https://bioconductor.org/packages/iSEEfier/
Package Downloads Report Download Stats