picked-group-fdr


Namepicked-group-fdr JSON
Version 0.7.3 PyPI version JSON
download
home_pagehttps://github.com/kusterlab/picked_group_fdr
SummaryScalable, accurate and sensitive protein group FDRs for large-scale mass spectrometry experiments
upload_time2024-11-04 13:37:00
maintainerNone
docs_urlNone
authorMatthew The
requires_python<3.12,>=3.8
licenseApache-2.0
keywords mass spectrometry protein inference proteomics
VCS
bugtrack_url
requirements No requirements were recorded.
Travis-CI No Travis.
coveralls test coverage No coveralls.
            # Picked Protein Group FDR

[![PyPI version](https://img.shields.io/pypi/v/picked_group_fdr.svg?logo=pypi&logoColor=FFE873)](https://pypi.org/project/picked_group_fdr/)
[![Supported Python versions](https://img.shields.io/pypi/pyversions/picked_group_fdr.svg?logo=python&logoColor=FFE873)](https://pypi.org/project/picked_group_fdr/)
[![PyPI downloads](https://img.shields.io/pypi/dm/picked_group_fdr.svg)](https://pypistats.org/packages/picked_group_fdr)

Scalable, accurate and sensitive protein group FDRs for large-scale mass spectrometry experiments.

Different search engine outputs are supported:
- [MaxQuant](https://www.maxquant.org/) (LFQ, TMT, SILAC)
- [Percolator](https://github.com/percolator/percolator) (no quantification)
- [FragPipe](https://fragpipe.nesvilab.org/) (LFQ)
- [Sage](https://github.com/lazear/sage) (LFQ)


## Documentation

The official Picked Group FDR documentation can be found at https://picked-group-fdr.readthedocs.io.

The documentation includes installation instructions, basic usage principles, examples and the API documentation.

Additionally, examples on how to run Picked Protein Group FDR with  different search engine outputs can be found in the `data/` folder.


## How to cite

Please cite the main publication:

The, M., Samaras, P., Kuster, B., & Wilhelm, M. (2022). *Reanalysis of ProteomicsDB Using an Accurate, Sensitive, and Scalable False Discovery Rate Estimation Approach for Protein Groups.* Molecular & Cellular Proteomics, 21(12).



            

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    "description": "# Picked Protein Group FDR\n\n[![PyPI version](https://img.shields.io/pypi/v/picked_group_fdr.svg?logo=pypi&logoColor=FFE873)](https://pypi.org/project/picked_group_fdr/)\n[![Supported Python versions](https://img.shields.io/pypi/pyversions/picked_group_fdr.svg?logo=python&logoColor=FFE873)](https://pypi.org/project/picked_group_fdr/)\n[![PyPI downloads](https://img.shields.io/pypi/dm/picked_group_fdr.svg)](https://pypistats.org/packages/picked_group_fdr)\n\nScalable, accurate and sensitive protein group FDRs for large-scale mass spectrometry experiments.\n\nDifferent search engine outputs are supported:\n- [MaxQuant](https://www.maxquant.org/) (LFQ, TMT, SILAC)\n- [Percolator](https://github.com/percolator/percolator) (no quantification)\n- [FragPipe](https://fragpipe.nesvilab.org/) (LFQ)\n- [Sage](https://github.com/lazear/sage) (LFQ)\n\n\n## Documentation\n\nThe official Picked Group FDR documentation can be found at https://picked-group-fdr.readthedocs.io.\n\nThe documentation includes installation instructions, basic usage principles, examples and the API documentation.\n\nAdditionally, examples on how to run Picked Protein Group FDR with  different search engine outputs can be found in the `data/` folder.\n\n\n## How to cite\n\nPlease cite the main publication:\n\nThe, M., Samaras, P., Kuster, B., & Wilhelm, M. (2022). *Reanalysis of ProteomicsDB Using an Accurate, Sensitive, and Scalable False Discovery Rate Estimation Approach for Protein Groups.* Molecular & Cellular Proteomics, 21(12).\n\n\n",
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