tidesurf documentation

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Python 3.10 Python 3.11 License: GPL v3 Code style: ruff Code coverage Python package PyPI - Version Documentation Status

tidesurf documentation#

tidesurf

This is the documentation for tidesurf, a Tool for IDentification and Enumeration of Spliced and Unspliced Read Fragments, implemented in Python. It enables the quantification of spliced and unspliced reads from 10x Genomics 5’ and 3’ scRNA-seq data, using the 10x Genomics Cell Ranger output.

Note

This project and its documentation are under active development.

Note

In the future, we aim to support other single-cell RNA-seq data formats, such as Smart-seq2.

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Citation#

If you use tidesurf in your research, please cite the following publication:

Schleicher, J.T., and Claassen, M. (2025). Accurate quantification of spliced and unspliced transcripts for single-cell RNA sequencing with tidesurf. bioRxiv 2025.01.28.635274; DOI: 10.1101/2025.01.28.635274.

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