https://github.com/fertiglab/ataccogaps
https://github.com/fertiglab/ataccogaps
Last synced: 6 months ago
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- Host: GitHub
- URL: https://github.com/fertiglab/ataccogaps
- Owner: FertigLab
- Created: 2019-10-08T14:28:58.000Z (over 6 years ago)
- Default Branch: master
- Last Pushed: 2024-10-22T20:25:06.000Z (over 1 year ago)
- Last Synced: 2025-10-25T14:09:52.784Z (8 months ago)
- Language: R
- Size: 77.2 MB
- Stars: 4
- Watchers: 3
- Forks: 1
- Open Issues: 0
-
Metadata Files:
- Readme: README.md
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README
# ATACCoGAPS
Package which provides tools for processing and analysis of single-cell ATAC-seq data with the Bayesian Non-Negative Matrix Factorization algorithm, CoGAPS, as described in our Nucleic Acids Research paper https://doi.org/10.1093/nar/gkaa349.
Install ATACCoGAPS with:
```
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ATACCoGAPS")
```
A tutorial demonstrating the standard analysis pipeline for ATACCoGAPS using data from Schep et al, 2017 can be found here: https://rossinerbe.github.io/ATACCoGAPS_Tutorial