# CaSpER

**Repository Path**: mirrors_grst/CaSpER

## Basic Information

- **Project Name**: CaSpER
- **Description**: No description available
- **Primary Language**: Unknown
- **License**: Not specified
- **Default Branch**: master
- **Homepage**: None
- **GVP Project**: No

## Statistics

- **Stars**: 0
- **Forks**: 0
- **Created**: 2021-01-22
- **Last Updated**: 2026-05-23

## Categories & Tags

**Categories**: Uncategorized

**Tags**: None

## README

CaSpER is published in Nature Communications: https://www.nature.com/articles/s41467-019-13779-x 

CaSpER documentation is [here: RMD file](https://rpubs.com/akdes/673120).
 
BAFExtract code is available [here](https://github.com/akdess/BAFExtract).

Tutorials
----------

1. Yale meningioma Bulk RNA-Seq dataset 
[R code](https://github.com/akdess/CaSpER/blob/master/demo/meningioma.R)

2. TCGA-GBM Bulk RNA-Seq dataset 
[R code](https://github.com/akdess/CaSpER/blob/master/demo/tcga_GBM.R)

3. TCGA-BRCA Bulk RNA-Seq dataset  
[R code](https://github.com/akdess/CaSpER/blob/master/demo/tcga_BRCA.R)

4. GBM Single-cell RNA-Seq dataset 
[R code](https://github.com/akdess/CaSpER/blob/master/demo/sCellGBM.R)

5. 10x Single-cell RNA-Seq dataset
[R code](https://github.com/akdess/CaSpER/blob/master/demo/MM135_10X.R)

Each run generally takes about 5-30 minutes.