scry

DOI: 10.18129/B9.bioc.scry    

This is the development version of scry; for the stable release version, see scry.

Small-Count Analysis Methods for High-Dimensional Data

Bioconductor version: Development (3.12)

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.

Author: F. William Townes [aut, cre, cph], Kelly Street [aut]

Maintainer: F. William Townes <will.townes at gmail.com>

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

Installation

To install this package, start R (version "4.0") and enter:

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("scry")

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("scry")

 

HTML R Script Overview of Scry Methods
PDF   Reference Manual

Details

biocViews DimensionReduction, GeneExpression, Normalization, PrincipalComponent, RNASeq, Sequencing, SingleCell, Software, Transcriptomics
Version 1.1.0
In Bioconductor since BioC 3.11 (R-4.0) (< 6 months)
License Artistic-2.0
Depends R (>= 4.0), stats, methods
Imports glmpca, Matrix, SingleCellExperiment, SummarizedExperiment
LinkingTo
Suggests BiocGenerics, knitr, testthat, covr, rmarkdown, ggplot2, DuoClustering2018
SystemRequirements
Enhances
URL
BugReports https://github.com/kstreet13/scry/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package scry_1.1.0.tar.gz
Windows Binary scry_1.1.0.zip
macOS 10.13 (High Sierra) scry_1.1.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/scry
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/scry
Package Short Url https://bioconductor.org/packages/scry/
Package Downloads Report Download Stats

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