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looking4clusters
This is the released version of looking4clusters; for the devel version, see looking4clusters.
Interactive Visualization of scRNA-Seq
Bioconductor version: Release (3.22)
Enables the interactive visualization of dimensional reduction, clustering, and cell properties for scRNA-Seq results. It generates an interactive HTML page using either a numeric matrix, SummarizedExperiment, SingleCellExperiment or Seurat objects as input. The input data can be projected into two-dimensional representations by applying dimensionality reduction methods such as PCA, MDS, t-SNE, UMAP, and NMF. Displaying multiple dimensionality reduction results within the same interface, with interconnected graphs, provides different perspectives that facilitate accurate cell classification. The package also integrates unsupervised clustering techniques, whose results that can be viewed interactively in the graphical interface. In addition to visualization, this interface allows manual selection of groups, labeling of cell entities based on processed meta-information, generation of new graphs displaying gene expression values for each cell, sample identification, and visual comparison of samples and clusters.
Author: David Barrios [aut, cre] ORCID iD ORCID: 0000-0003-4465-0200 , Angela Villaverde [aut] ORCID iD ORCID: 0000-0002-7337-7218 , Carlos Prieto [aut] ORCID iD ORCID: 0000-0001-8178-9768
Maintainer: David Barrios <metal at usal.es>
citation("looking4clusters")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("looking4clusters")
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("looking4clusters")
Details
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Package Archives
Follow Installation instructions to use this package in your R session.