Open slidebook .sldy files in Python

Overview

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)
Owner
The Institute of Cancer Research
The Institute of Cancer Research is making the discoveries that defeat cancer. We're the UK's top academic research centre, a postgrad college, and a charity.
The Institute of Cancer Research
Check is a integer is even

Is Even Check if interger is even using isevenapi. https://isevenapi.xyz/ Main features: cache memoization api retry handler hide ads Install pip inst

Rosiney Gomes Pereira 45 Dec 19, 2022
ViberExport - Export messages from Viber messenger using viber.db file

📲 ViberExport Export messages from Viber messenger using viber.db file ⚡ Usage:

7 Nov 23, 2022
Implementation of the Folders📂 esoteric programming language, a language with no code and just folders.

Folders.py Folders is an esoteric programming language, created by Daniel Temkin in 2015, which encodes the program entirely into the directory struct

Sina Khalili 425 Dec 17, 2022
A lightweight solution for local Particle development.

neopo A lightweight solution for local Particle development. Features Builds Particle projects locally without any overhead. Compatible with Particle

Nathan Robinson 19 Jan 01, 2023
Pylexa - Artificial Assistant made with Python

Pylexa - Artificial Assistant made with Python Alexa is a famous artificial assistant used massively across the world. It is a substitute of Alexa whi

\_PROTIK_/ 4 Nov 03, 2021
Unfinished Python library based on ndspy, for Zelda: Phantom Hourglass and Spirit Tracks.

zed An unfinished library and toolset by me, for viewing and editing files from The Legend of Zelda: Phantom Hourglass and The Legend of Zelda: Spirit

4 Oct 13, 2022
Data derived from the OpenType specification

This package currently provides the opentypespec.tags module, which exports FEATURE_TAGS, SCRIPT_TAGS, LANGUAGE_TAGS and BASELINE_TAGS dictionaries, representing data from the Layout Tag Registry

Simon Cozens 4 Dec 01, 2022
Modify the value and status of the records KoboToolbox

Modify the value and status of the records KoboToolbox (Modica el valor y status de los registros de KoboToolbox)

1 Oct 30, 2021
Calculator in command line using python programming language

Calculator in command line using python programming language University of the People Python fundamental Chapter 5 Conditionals and recursion The main

mark sikaundi 3 Dec 09, 2021
A collection of design patterns and idioms in Python (With tests!).

Python Patterns Help the project financially: Donate: https://smartlegion.github.io/donate/ Yandex Money: https://yoomoney.ru/to/4100115206129186 PayP

5 Sep 12, 2021
GA SEI Unit 4 project backend for Bloom.

Grow Your OpportunitiesTM Background Watch the Bloom Intro Video At Bloom, we believe every job seeker deserves an opportunity to find meaningful work

Jonathan Herman 3 Sep 20, 2021
Possible solutions to Wordscapes, a mobile game for the android operating system, downloadable from the play store

Possible solutions to Wordscapes, a mobile game for the android operating system, downloadable from the play store

Clifford Onyonka 2 Feb 23, 2022
Ssma is a tool that helps you collect your badges in a satr platform

satr-statistics-maker ssma is a tool that helps you collect your badges in a satr platform 🎖️ Requirements python = 3.7 Installation first clone the

TheAwiteb 3 Jan 04, 2022
Performance data for WASM SIMD instructions.

WASM SIMD Data This repository contains code and data which can be used to generate a JSON file containing information about the WASM SIMD proposal. F

Evan Nemerson 5 Jul 24, 2022
A python mathematics module

A python mathematics module

Fayas Noushad 4 Nov 28, 2021
Ellipitical Curve Table Generator

Ellipitical-Curve-Table-Generator This script generates a table of elliptical po

Nishaant Goswamy 1 Jan 02, 2022
Opensource Desktop application for kenobi.

Kenobi-Server WIP Opensource desktop application for Kenobi. Download the apple watch app to get started. What is this repo? It's repo for the opensou

Aayush 9 Oct 08, 2022
Identify and annotate mutations from genome editing assays.

CRISPR-detector Here we propose our CRISPR-detector to facilitate the CRISPR-edited amplicon and whole genome sequencing data analysis, with functions

hlcas 2 Feb 20, 2022
Repositório do programa ConstruDelas - Trilha Python - Módulos 1 e 2

ConstruDelas - Introdução ao Python Nome: Visão Geral Bem vinda ao repositório do curso ConstruDelas, módulo de Introdução ao Python. Aqui vamos mante

WoMakersCode 8 Oct 14, 2022
Exercise to teach a newcomer to the CLSP grid to set up their environment and run jobs

Exercise to teach a newcomer to the CLSP grid to set up their environment and run jobs

Alexandra 2 May 18, 2022