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scReClassify

scReClassify: post hoc cell type classification of single-cell RNA-seq data

Bioconductor version: 3.23 · Package version: 1.18.0

A post hoc cell type classification tool to fine-tune cell type annotations generated by any cell type classification procedure with semi-supervised learning algorithm AdaSampling technique. The current version of scReClassify supports Support Vector Machine and Random Forest as a base classifier.

Installation

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

BiocManager::install("scReClassify")

Details

MaintainerTaiyun Kim <taiyun.kim91@gmail.com>
AuthorPengyi Yang [aut] (ORCID: <https://orcid.org/0000-0003-1098-3138>), Taiyun Kim [aut, cre] (ORCID: <https://orcid.org/0000-0002-5028-836X>)
LicenseGPL-3 + file LICENSE
URLhttps://github.com/SydneyBioX/scReClassify, http://www.bioconductor.org/packages/release/bioc/html/scReClassify.html
Bug Reportshttps://github.com/SydneyBioX/scReClassify/issues
Downloads rank290
Source branchRELEASE_3_23
biocViewsClassification, SingleCell, Software, SupportVectorMachine, Transcriptomics

Documentation

Download

Dependencies

Depends: R (>= 4.1)

Imports: randomForest, e1071, stats, SummarizedExperiment, SingleCellExperiment, methods

Suggests: testthat, knitr, BiocStyle, rmarkdown, DT, mclust, dplyr