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https://github.com/Hoohm/CITE-seq-Count
A tool that allows to get UMI counts from a single cell protein assay
https://github.com/Hoohm/CITE-seq-Count
10x citeseq dropseq single-cell
Last synced: 14 days ago
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A tool that allows to get UMI counts from a single cell protein assay
- Host: GitHub
- URL: https://github.com/Hoohm/CITE-seq-Count
- Owner: Hoohm
- License: mit
- Created: 2017-08-07T20:32:40.000Z (over 7 years ago)
- Default Branch: master
- Last Pushed: 2024-07-22T22:56:44.000Z (4 months ago)
- Last Synced: 2024-10-02T20:35:16.319Z (about 2 months ago)
- Topics: 10x, citeseq, dropseq, single-cell
- Language: Python
- Homepage: https://hoohm.github.io/CITE-seq-Count/
- Size: 787 KB
- Stars: 77
- Watchers: 11
- Forks: 44
- Open Issues: 43
-
Metadata Files:
- Readme: README.md
- Changelog: CHANGELOG.md
- License: LICENSE.txt
Awesome Lists containing this project
README
[![DOI](https://zenodo.org/badge/99617772.svg)](https://zenodo.org/badge/latestdoi/99617772)
# CITE-seq-Count
A python package that allows to count antibody TAGS from a [CITE-seq](https://www.nature.com/articles/nmeth.4380) and/or [cell hashing](https://www.biorxiv.org/content/early/2017/12/21/237693) experiment.IMPORTANT NEWS
------------------------------------------
There was a major bug in version 1.3.4 of CITE-seq-Count. The results were in read counts and not in UMI counts.This is fixed in version 1.4.0 or above. Please rerun your data as this might provide a cleaner result for your data.
Here is the website referencing the wetlab protocols needed https://cite-seq.com/
Installation
-------------------------------------------```
pip install CITE-seq-Count==1.4.5
```The official documentation can be found [here](https://hoohm.github.io/CITE-seq-Count/)