Single cell classification via cell-type hierarchies based on ensemble learning and sample size estimation.

Install Bioconductor packages S4Vectors, hopach and limma packages using BiocManager:

# install.packages("BiocManager")
BiocManager::install(c("S4Vectors", "hopach", "limma"))

Then install scClassify using devtools:

library(devtools)
devtools::install_github("SydneyBioX/scClassify")

You can find the vignette at this webiste: https://sydneybiox.github.io/scClassify/index.html.

Also, you can find our interactive shiny application (beta) at this webiste: http://shiny.maths.usyd.edu.au/scClassify.

Currently available pre-trained scClassify models (in scClassifyTrainModel class)

If you have any enquiries, espcially about performing scClassify to classify your cells or to build your own models, please contact [email protected] or [email protected].

scClassify: hierarchical classification of cells

Yingxin Lin, Yue Cao, Hani J Kim, Agus Salim, Terence P. Speed, Dave Lin, Pengyi Yang, Jean Yee Hwa Yang

bioRxiv 776948; doi: https://doi.org/10.1101/776948