ScWizard: A web-based automated tool for classifying and annotating single cells and downstream analysis of single-cell RNA-seq data in cancers.

ABSTRACT: The emerging number of single-cell RNA-seq (scRNA-Seq) datasets allows the characterization of cell types across various cancer types. However, there is still lack of effective tools to integrate the various analysis of single-cells, especially for making fine annotation on subtype cells within the tumor microenvironment (TME). We developed scWizard, a point-and-click tool packaging automated process including our developed cell annotation method based on deep neural network learning and 11 downstream analyses methods. scWizard used 113,976 cells across 13 cancer types as a built-in reference dataset for training the hierarchical model enabling to automatedly classify and annotate 7 major cell types and 47 cell subtypes in the TME. scWizard provides a built-in pre-training set for user's f

SUBMITTER: Wei J 

PROVIDER: S-EPMC9474308 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature