napari-PixSeq
A Napari plugin for extracting time series traces from single molecule FRET data.
napari-PixSeq uses Picasso (picassosr) as a backend and includes features for aligning image channels/datasets, undrifting images, detecting/fitting localisations and extracting traces, and supports both ALEX and FRET data. Traces can be exported in different formats for downstream analysis.
napari-PixSeq traces can be analysed with TraceAnalyser: https://github.com/piedrro/TraceAnalyser
This is still undergoing development, so some features may not work as expected.
This was built by Dr Piers Turner from the Kapanidis Lab, University of Oxford.
This napari plugin was generated with Cookiecutter using @napari's cookiecutter-napari-plugin template.
Installation
You can install napari-PixSeq via pip:
pip install napari-PixSeq
You can install napari-PixSeq via [GitHub]:
conda create –-name napari-pixseq python==3.9
conda activate napari-pixseq
conda install -c anaconda git
conda update --all
pip install git+https://github.com/piedrro/napari-PixSeq.git
Contributing
Contributions are very welcome. Tests can be run with tox, please ensure the coverage at least stays the same before you submit a pull request.
License
Distributed under the terms of the MIT license, "napari-PixSeq" is free and open source software
Issues
If you encounter any problems, please file an issue along with a detailed description.
1 maintainer
Metadata
1 maintainer
Release files for napari-PixSeq 1.0.3
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| napari_pixseq-1.0.3.tar.gz | 747.5 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| napari_PixSeq-1.0.3-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 860.6 kB
Release files / napari_pixseq-1.0.3.tar.gz
| Download URL | napari_pixseq-1.0.3.tar.gz |
|---|---|
| Size | 747.5 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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twine/5.1.0 CPython/3.9.18
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Release files / napari_PixSeq-1.0.3-py3-none-any.whl
| Download URL | napari_PixSeq-1.0.3-py3-none-any.whl |
|---|---|
| Size | 113.0 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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BLAKE2b-256 checksum How to use checksums |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/5.1.0 CPython/3.9.18
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