Package: GloScope 1.3.0

William Torous

GloScope: Population-level Representation on scRNA-Seq data

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.

Authors:William Torous [aut, cre], Hao Wang [aut], Elizabeth Purdom [aut], Boying Gong [aut]

GloScope_1.3.0.tar.gz
GloScope_1.3.0.zip(r-4.5)GloScope_1.3.0.zip(r-4.4)GloScope_1.3.0.zip(r-4.3)
GloScope_1.3.0.tgz(r-4.4-any)GloScope_1.3.0.tgz(r-4.3-any)
GloScope_1.3.0.tar.gz(r-4.5-noble)GloScope_1.3.0.tar.gz(r-4.4-noble)
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GloScope.pdf |GloScope.html✨
GloScope/json (API)
NEWS

# Install 'GloScope' in R:

install.packages('GloScope', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/epurdom/gloscope/issues

Datasets:

example_SCE - SingleCellExperiment containing example inputs to GloScope
example_SCE_small - SingleCellExperiment containing example inputs to GloScope

On BioConductor:GloScope-1.3.0(bioc 3.20)GloScope-1.2.0(bioc 3.19)

bioconductor-package

2 exports 1.31 score 69 dependencies

Last updated 2 months agofrom:15b5dfafc4

Exports:gloscope plotMDS

Dependencies:abind askpass BH Biobase BiocGenerics BiocParallel cli codetools colorspace cpp11 crayon curl DelayedArray fansi farver FNN formatR futile.logger futile.options GenomeInfoDb GenomeInfoDbData GenomicRanges ggplot2 glue gtable httr IRanges isoband jsonlite labeling lambda.r lattice lifecycle magrittr MASS Matrix MatrixGenerics matrixStats mclust mgcv mime munsell mvnfast nlme openssl pillar pkgconfig R6 RANN RColorBrewer Rcpp RcppArmadillo rlang S4Arrays S4Vectors scales SingleCellExperiment snow SparseArray SummarizedExperiment sys tibble UCSC.utils utf8 vctrs viridisLite withr XVector zlibbioc

scRNA-Seq Population-level Analysis using GloScope

Hao Wang, William Torous, Elizabeth Purdom

Rendered fromGloScopeTutorial.Rmdusingknitr::rmarkdownon Jun 30 2024.

Last update: 2024-04-29
Started: 2023-08-16

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
SingleCellExperiment containing example inputs to GloScope	example_SCE example_SCE_small
Calculate statistical divergence between all sample pairs	gloscope
Plot the multidimensional scaling of the GloScope represenation	paletteBig plotMDS