Welcome to the new bioconductor.org!

NeuCA

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

NEUral network-based single-Cell Annotation tool


Bioconductor version: Development (3.19)

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")

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

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

Details

biocViews Classification, DataImport, DataRepresentation, GeneExpression, NeuralNetwork, Preprocessing, RNASeq, Sequencing, SingleCell, Software, Transcription, Transcriptomics
Version 1.9.0
In Bioconductor since BioC 3.14 (R-4.1) (2.5 years)
License GPL-2
Depends R (>= 3.5.0), keras, limma, e1071, SingleCellExperiment
Imports
System Requirements
URL
See More
Suggests BiocStyle, knitr, rmarkdown, networkD3
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package NeuCA_1.9.0.tar.gz
Windows Binary NeuCA_1.9.0.zip (64-bit only)
macOS Binary (x86_64) NeuCA_1.9.0.tgz
macOS Binary (arm64) NeuCA_1.9.0.tgz
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