diff --git a/CITATION.cff b/CITATION.cff new file mode 100644 index 0000000..313da7e --- /dev/null +++ b/CITATION.cff @@ -0,0 +1,24 @@ +cff-version: 1.2.0 +title: ScreenPro2 +message: >- + If you use this software, please cite the associated publication below. +authors: + - family-names: O'Loughlin + given-names: Timothy A. + - family-names: Arab + given-names: Abolfazl + - family-names: Gilbert + given-names: Luke A. +preferred-citation: + type: article + title: Chemogenomic maps reveal a PRDX1-dependent iron–damage axis in the DNA damage response + authors: + - family-names: O'Loughlin + given-names: T.A. + - family-names: Arab + given-names: A. + - family-names: Gilbert + given-names: L.A. + journal: Nature Chemical Biology + year: 2026 + doi: 10.1038/s41589-026-02312-z diff --git a/README.md b/README.md index ce6ed78..fe033b8 100644 --- a/README.md +++ b/README.md @@ -1,5 +1,6 @@ [![website](https://img.shields.io/badge/website-live-brightgreen)](https://arcinstitute.org/tools/screenpro2) -[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.18807934.svg)](https://doi.org/10.5281/zenodo.18807934) +[![zenodo](https://zenodo.org/badge/DOI/10.5281/zenodo.18807934.svg)](https://doi.org/10.5281/zenodo.18807934) +[![NCB](https://img.shields.io/badge/DOI-10.1038%2Fs41589--026--02312--z-blue.svg)](https://doi.org/10.1038/s41589-026-02312-z) [![PyPI version](https://badge.fury.io/py/ScreenPro2.svg)](https://badge.fury.io/py/ScreenPro2) [![Documentation Status](https://readthedocs.org/projects/screenpro2/badge/?version=latest)](https://screenpro2.readthedocs.io/en/latest/?version=latest) [![Downloads](https://static.pepy.tech/badge/screenpro2)](https://pepy.tech/project/screenpro2) @@ -337,10 +338,12 @@ ScreenPro2 is licensed under the terms of the MIT license (see [LICENSE](LICENSE by Abolfazl (Abe) Arab ([@abearab](https://github.com/abearab)) as a Research Associate in the Gilbert lab at UCSF and Arc Institute. ## Citation -If you use ScreenPro2 in your research, please cite the following paper. +If you use ScreenPro2 in your research, please cite both the software release and the published paper. - Coming soon... +**Final publication note**: The final ScreenPro2 publication is now available in _Nature Chemical Biology_ (2026): https://doi.org/10.1038/s41589-026-02312-z + +- **Software (Zenodo)**: +> Arab, A., et al. ArcInstitute/ScreenPro2. _Zenodo_ (2026). https://doi.org/10.5281/zenodo.18884467 -## Development -### Testing -Tests can be easily run using the `pytest` framework. +- **Paper (Nature Chemical Biology)**: +> O’Loughlin, T.A., Arab, A., et al. **Chemogenomic maps reveal a PRDX1-dependent iron–damage axis in the DNA damage response.** _Nat Chem Biol_ (2026). https://doi.org/10.1038/s41589-026-02312-z diff --git a/pyproject.toml b/pyproject.toml index 3e1949d..9c47f2b 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,7 +1,7 @@ [tool.poetry] name = "ScreenPro2" description = "Flexible analysis of high-content CRISPR screening" -version = "0.6.1" +version = "0.7.0" authors = [ "Abolfazl Arab ", "Nick Youngblut ",