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scry

Small-Count Analysis Methods for High-Dimensional Data

Bioconductor version: 3.23 · Package version: 1.24.0

Many modern biological datasets consist of small counts that are not well fit by standard linear-Gaussian methods such as principal component analysis. This package provides implementations of count-based feature selection and dimension reduction algorithms. These methods can be used to facilitate unsupervised analysis of any high-dimensional data such as single-cell RNA-seq.

Installation

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

BiocManager::install("scry")

Details

MaintainerKelly Street <street.kelly@gmail.com>
AuthorKelly Street [aut, cre], F. William Townes [aut, cph], Davide Risso [aut], Stephanie Hicks [aut]
LicenseArtistic-2.0
URLhttps://bioconductor.org/packages/scry.html
Bug Reportshttps://github.com/kstreet13/scry/issues
Downloads rank568
Source branchRELEASE_3_23
biocViewsDimensionReduction, GeneExpression, Normalization, PrincipalComponent, RNASeq, Sequencing, SingleCell, Software, Transcriptomics

Documentation

Download

Dependencies

Depends: R (>= 4.0), stats, methods

Imports: DelayedArray, glmpca (>= 0.2.0), Matrix, SingleCellExperiment, SummarizedExperiment, BiocSingular

Suggests: BiocGenerics, covr, DuoClustering2018, ggplot2, HDF5Array, knitr, markdown, rmarkdown, TENxPBMCData, testthat

Reverse dependencies

Imports Me (1): BatchSVG