NeuCA

NEUral network-based single-Cell Annotation tool

Bioconductor version: Release (3.20)

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>

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

Installation

To install this package, start R (version "4.4") 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


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Classification, DataImport, DataRepresentation, GeneExpression, NeuralNetwork, Preprocessing, RNASeq, Sequencing, SingleCell, Software, Transcription, Transcriptomics
Version	1.12.0
In Bioconductor since	BioC 3.14 (R-4.1) (3 years)
License	GPL-2
Depends	R (>= 3.5.0), keras, limma, e1071, SingleCellExperiment, kableExtra
Imports
System Requirements
URL

Suggests	BiocStyle, knitr, rmarkdown, networkD3
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Build Report	Build Report

Package Archives

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

Source Package
Windows Binary (x86_64)
macOS Binary (x86_64)	NeuCA_1.12.0.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