Slingshot in Python
This is a Python implementation of the Slingshot pseudotime algorithm (Street et al., 2018). The original implementation is written in R: https://github.com/kstreet13/slingshot.
A complete working example is located in slingshot.ipynb, using a synthetically generated dataset.
Installation:
pip install pyslingshot
Deprecated version
Older versions if pyslingshot (before v0.1.0) requires manually installing numpy, scipy, sklearn, and my fork
of pcurvepy (https://github.com/mossjacob/pcurvepy).
Contributing
- Fork & download source
- Install requirements with
poetry install
[1] Street, K., Risso, D., Fletcher, R.B., Das, D., Ngai, J., Yosef, N., Purdom, E. and Dudoit, S., 2018. Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics. BMC genomics, 19(1), pp.1-16.
1 maintainer
Metadata
1 maintainer
Release files for pyslingshot 0.2.0
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| pyslingshot-0.2.0.tar.gz | 809.6 kB | Without provenance | Details |
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| pyslingshot-0.2.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 822.6 kB
Release files / pyslingshot-0.2.0.tar.gz
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| Tags | Python 3 |
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