NeuCA

DOI: 10.18129/B9.bioc.NeuCA  

NEUral network-based single-Cell Annotation tool

Bioconductor version: Release (3.16)

NeuCA is is a neural-network based method for scRNA-seq data annotation. It can automatically adjust its classification strategy depending on cell type correlations, to accurately annotate cell. NeuCA can automatically utilize the structure information of the cell types through a hierarchical tree to improve the annotation accuracy. It is especially helpful when the data contain closely correlated cell types.

Author: Ziyi Li [aut], Hao Feng [aut, cre]

Maintainer: Hao Feng <hxf155 at case.edu>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("NeuCA")

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("NeuCA")

 

HTML	R Script	NeuCA Package User's Guide
PDF		Reference Manual

Details

biocViews	Classification, DataImport, DataRepresentation, GeneExpression, NeuralNetwork, Preprocessing, RNASeq, Sequencing, SingleCell, Software, Transcription, Transcriptomics
Version	1.4.0
In Bioconductor since	BioC 3.14 (R-4.1) (1.5 years)
License	GPL-2
Depends	R (>= 3.5.0), keras, limma, e1071, SingleCellExperiment
Imports
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, networkD3
SystemRequirements
Enhances
URL
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	NeuCA_1.4.0.tar.gz
Windows Binary	NeuCA_1.4.0.zip
macOS Binary (x86_64)	NeuCA_1.4.0.tgz
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/NeuCA
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/NeuCA
Bioc Package Browser	https://code.bioconductor.org/browse/NeuCA/
Package Short Url	https://bioconductor.org/packages/NeuCA/
Package Downloads Report	Download Stats