Work in progress
slidebook-python
Open slidebook .sldy files in Python
To install
slidebook-python requires Python >= 3.9
pip install slidebook-python
To use
from sld import SlideBook
sld = SlideBook("/path/to/file.sldy")
# How many acquisitions
print(sld.number_acquisitions)
# 4
# How many channels in first acquisition
print(sld.images[0].num_channels)
# Get data from channel 0 of the second acquisition
data = sld.images[1].data["ch_0"]
To visualise in napari
N.B. napari plugin is in development
import napari
import numpy as np
from sld import SlideBook
sld = SlideBook("/path/to/file.sldy")
viewer = napari.Viewer()
viewer.add_image((np.squeeze(sld.images[0].data["ch_0"])), name="Channel 0")
viewer.add_image((np.squeeze(sld.images[0].data["ch_1"])), name="Channel 1")
napari.run()
By default, Slidebook will not load image data into memory. To force this, use mmap_mode=None:
sld = SlideBook("/path/to/file.sldy", mmap_mode=None)
2 maintainers
Metadata
2 maintainers
Release files for slidebook-python 0.0.3
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Source distribution (sdist)
| File | Size | Uploaded | Provenance | |
|---|---|---|---|---|
| slidebook-python-0.0.3.tar.gz | 5.8 kB | Without provenance | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| slidebook_python-0.0.3-py2.py3-none-any.whl | Python 3, Python 2 | none | any | Details |
Total release size: 10.0 kB
Release files / slidebook-python-0.0.3.tar.gz
| Download URL | slidebook-python-0.0.3.tar.gz |
|---|---|
| Size | 5.8 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
3303937868cf98bbeb1a2adb076e5cdbc39be5b5051a03aaf4a8f15cfd707954
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| Uploaded via |
twine/3.7.1 importlib_metadata/4.10.1 pkginfo/1.8.2 requests/2.27.1 requests-toolbelt/0.9.1 tqdm/4.62.3 CPython/3.10.2
|
Release files / slidebook_python-0.0.3-py2.py3-none-any.whl
| Download URL | slidebook_python-0.0.3-py2.py3-none-any.whl |
|---|---|
| Size | 4.2 kB |
| Tags | Python 2 Python 3 |
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SHA-256 checksum How to use checksums |
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| Uploaded via |
twine/3.7.1 importlib_metadata/4.10.1 pkginfo/1.8.2 requests/2.27.1 requests-toolbelt/0.9.1 tqdm/4.62.3 CPython/3.10.2
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