prescient
Software for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs), a generative model for modeling single-cell time-series.
- Current paper version: https://www.biorxiv.org/content/10.1101/2020.08.26.269332v1
- For paper pre-processing scripts, training bash scripts, pre-trained models, and visualization notebooks please visit https://github.com/gifford-lab/prescient-analysis.
Documentation
Documentation is available at https://cgs.csail.mit.edu/prescient.
Requirements
- pytorch 1.4.0
- geomloss 0.2.3, pykeops 1.3
- numpy, scipy, pandas, sklearn, tqdm, annoy
- scanpy, pyreadr, anndata
- Recommended: An Nvidia GPU with CUDA support for GPU acceleration (see paper for more details on computational resources)
Bugs & Suggestions
Please report any bugs, problems, suggestions or requests as a Github issue
1 maintainer
Release files for prescient 0.1.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| prescient-0.1.0.tar.gz | 13.7 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| prescient-0.1.0-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 31.3 kB
Release files / prescient-0.1.0.tar.gz
| Download URL | prescient-0.1.0.tar.gz |
|---|---|
| Size | 13.7 kB |
| Tags | Source |
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SHA-256 checksum How to use checksums |
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twine/3.3.0 pkginfo/1.7.0 requests/2.25.1 setuptools/52.0.0.post20210125 requests-toolbelt/0.9.1 tqdm/4.56.0 CPython/3.8.5
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Release files / prescient-0.1.0-py3-none-any.whl
| Download URL | prescient-0.1.0-py3-none-any.whl |
|---|---|
| Size | 17.7 kB |
| Tags | Python 3 |
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twine/3.3.0 pkginfo/1.7.0 requests/2.25.1 setuptools/52.0.0.post20210125 requests-toolbelt/0.9.1 tqdm/4.56.0 CPython/3.8.5
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