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CAEN

Category encoding method for selecting feature genes for the classification of single-cell RNA-seq


Bioconductor version: Release (3.18)

With the development of high-throughput techniques, more and more gene expression analysis tend to replace hybridization-based microarrays with the revolutionary technology.The novel method encodes the category again by employing the rank of samples for each gene in each class. We then consider the correlation coefficient of gene and class with rank of sample and new rank of category. The highest correlation coefficient genes are considered as the feature genes which are most effective to classify the samples.

Author: Zhou Yan [aut, cre]

Maintainer: Zhou Yan <2160090406 at email.szu.edu.cn>

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("CAEN")

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("CAEN")
CAEN Tutorial HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews ATACSeq, Classification, DifferentialExpression, GeneExpression, RIPSeq, RNASeq, Sequencing, SingleCell, Software
Version 1.10.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL-2
Depends R (>= 4.1)
Imports stats, PoiClaClu, SummarizedExperiment, methods
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Suggests knitr, rmarkdown, BiocManager, SummarizedExperiment, BiocStyle
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Package Archives

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

Source Package CAEN_1.10.0.tar.gz
Windows Binary CAEN_1.10.0.zip (64-bit only)
macOS Binary (x86_64) CAEN_1.10.0.tgz
macOS Binary (arm64) CAEN_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CAEN
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CAEN
Bioc Package Browser https://code.bioconductor.org/browse/CAEN/
Package Short Url https://bioconductor.org/packages/CAEN/
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