https://cole-trapnell-lab.github.io/garnett/

Automated cell type classification
https://cole-trapnell-lab.github.io/garnett/

Last synced: 16 days ago
JSON representation

Automated cell type classification

• Host: GitHub
• URL: https://cole-trapnell-lab.github.io/garnett/
• Owner: cole-trapnell-lab
• License: mit
• Created: 2019-01-31T21:38:07.000Z (over 5 years ago)
• Default Branch: master
• Last Pushed: 2023-08-04T20:39:03.000Z (11 months ago)
• Last Synced: 2024-03-16T00:25:29.128Z (4 months ago)
• Language: R
• Size: 89.2 MB
• Stars: 96
• Watchers: 10
• Forks: 24
• Open Issues: 6
• Metadata Files:
  • Readme: README.md
  • License: LICENSE
  • Code of conduct: code-of-conduct.md

Lists

• awesome-single-cell - Garnett - [R] - Garnett is a software package that facilitates automated cell type classification from single-cell expression data. Garnett works by taking single-cell data, along with a cell type definition (marker) file, and training a regression-based classifier. Once a classifier is trained for a tissue/sample type, it can be applied to classify future datasets from similar tissues. In addition to describing training and classifying functions, this website aims to be a repository of previously trained classifiers. [Supervised Classification Enables Rapid Annotation of Cell Atlases](https://www.nature.com/articles/s41592-019-0535-3) (Software packages / Cell type identification and classification)
• awesome-single-cell - Garnett - [R] - Garnett is a software package that faciliates automated cell type classification from single-cell expression data. Garnett works by taking single-cell data, along with a cell type definition (marker) file, and training a regression-based classifier. Once a classifier is trained for a tissue/sample type, it can be applied to classify future datasets from similar tissues. In addition to describing training and classifying functions, this website aims to be a repository of previously trained classifiers. [Supervised Classification Enables Rapid Annotation of Cell Atlases](https://www.nature.com/articles/s41592-019-0535-3) (Software packages / Cell type identification and classification)

README

        
![example workflow](https://github.com/cole-trapnell-lab/garnett/actions/workflows/check-standard.yaml/badge.svg)

[![Coverage status](https://codecov.io/gh/cole-trapnell-lab/garnett/branch/master/graph/badge.svg)](https://codecov.io/github/cole-trapnell-lab/garnett?branch=master)

# Garnett

### Automated cell type classification

Please see our [website](http://cole-trapnell-lab.github.io/garnett/) for information on installing and using Garnett