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GloScope

Population-level Representation on scRNA-Seq data

Bioconductor version: 3.23 · Package version: 2.2.0

This package aims at representing and summarizing the entire single-cell profile of a sample. It allows researchers to perform important bioinformatic analyses at the sample-level such as visualization and quality control. The main functions Estimate sample distribution and calculate statistical divergence among samples, and visualize the distance matrix through MDS plots.

Installation

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

BiocManager::install("GloScope")

Details

MaintainerElizabeth Purdom <epurdom@stat.berkeley.edu>
AuthorElizabeth Purdom [aut, cre], William Torous [aut] (ORCID: <https://orcid.org/0000-0001-5668-5510>), Hao Wang [aut] (ORCID: <https://orcid.org/0000-0002-0749-474X>), Boying Gong [aut]
LicenseArtistic-2.0
Bug Reportshttps://github.com/epurdom/GloScope/issues
Downloads rank204
Source branchRELEASE_3_23
biocViewsDataRepresentation, QualityControl, RNASeq, Sequencing, SingleCell, Software

Documentation

Download

Dependencies

Depends: R (>= 4.4.0)

Imports: utils, stats, MASS, mclust, ggplot2, RANN, FNN, BiocParallel, mvnfast, SingleCellExperiment, rlang, RColorBrewer, pheatmap, vegan, cluster, boot, permute

Suggests: BiocStyle, testthat (>= 3.0.0), knitr, rmarkdown, zellkonverter