NeuCA
NEUral network-based single-Cell Annotation tool
Bioconductor version: Release (3.17)
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("NeuCA")):
Installation
To install this package, start R (version "4.3") 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")| NeuCA Package User's Guide | HTML | R Script |
| Reference Manual |
Details
| biocViews | Classification, DataImport, DataRepresentation, GeneExpression, NeuralNetwork, Preprocessing, RNASeq, Sequencing, SingleCell, Software, Transcription, Transcriptomics |
| Version | 1.6.0 |
| In Bioconductor since | BioC 3.14 (R-4.1) (2 years) |
| License | GPL-2 |
| Depends | R (>= 3.5.0), keras, limma, e1071, SingleCellExperiment |
| Imports | |
| Linking To | |
| Suggests | BiocStyle, knitr, rmarkdown, networkD3 |
| System Requirements | |
| Enhances | |
| URL |
See More
| 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_1.6.0.tar.gz |
| Windows Binary | NeuCA_1.6.0.zip |
| macOS Binary (x86_64) | NeuCA_1.6.0.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 |