SNAF
Splicing Neo Antigen Finder (SNAF) is an easy-to-use Python package to identify splicing-derived tumor neoantigens from RNA sequencing data, it can predict, prioritize and visualize MHC-bound neoantigen for T cell (T antigen) and altered surface protein for B cell (B antigen).
Tutorial and documentation
Interactive Viewers (below, take a few seconds to load)
Input and Output
Simply put, user needs to supply a folder with bam files, and the HLA type assciated with each patient (using your favorite HLA typing tool). And it will generate predicted immunogenic MHC-bound peptides and altered surface protein. Moreover, there's a myriad of convenient function that enables users to conduct survival analysis, association analysis and publication-quality visualiztion. Check our tutorials for more detail.
Citation
A preprint will be released soon.
Contact
Guangyuan(Frank) Li
Email: li2g2@mail.uc.edu
PhD student, Biomedical Informatics
Cincinnati Children’s Hospital Medical Center(CCHMC)
University of Cincinnati, College of Medicine
1 maintainer
Metadata
1 maintainer
Release files for SNAF 0.7.0
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Source distribution (sdist)
| File | Size | Uploaded | Provenance | Actions |
|---|---|---|---|---|
| SNAF-0.7.0.tar.gz | 596.2 kB | Without provenance | Details for SNAF-0.7.0.tar.gz |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Actions Reset |
|---|---|---|---|---|
| SNAF-0.7.0-py3-none-any.whl | Python 3 | none | any | Details for SNAF-0.7.0-py3-none-any.whl |
Total release size: 1.2 MB
Release files / SNAF-0.7.0.tar.gz
| Download URL | SNAF-0.7.0.tar.gz |
|---|---|
| Size | 596.2 kB |
| Tags | Source |
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SHA-256 checksum How to use checksums |
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Release files / SNAF-0.7.0-py3-none-any.whl
| Download URL | SNAF-0.7.0-py3-none-any.whl |
|---|---|
| Size | 604.4 kB |
| Tags | Python 3 |
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twine/3.4.2 importlib_metadata/4.8.1 pkginfo/1.7.1 requests/2.26.0 requests-toolbelt/0.9.1 tqdm/4.62.3 CPython/3.6.13
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