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 bookings for TUM libraries.

TUM Library Checker Only for educational purposes This repository contains a crawler to save bookings for TUM libraries in a CSV file. Sample data fro

Leon Blumenthal 3 Jan 27, 2022
Model Quantization Benchmark

MQBench Update V0.0.2 Fix academic prepare setting. More deployable prepare process. Fix setup.py. Fix deploy on SNPE. Fix convert_deploy bug. Add Qua

500 Jan 06, 2023
Just a little benchmark for scrapper PC's

PopMark Just a little benchmark for scrapper PC's This benchmark is for old computer that dont support other benchmark because of support. Like lack o

Garry 1 Nov 24, 2021
Program Input Data Mahasiswa Oop

PROGRAM INPUT NILAI MAHASISWA MENGGUNAKAN OOP PENGERTIAN OOP object-oriented-programing/OOP adalah paradigma pemrograman berdasarkan konsep "objek", y

Maulana Reza Badrudin 1 Jan 05, 2022
A prototype COG-based tile server for sparse Mars datasets

Mars tiler Mars Tiler is a prototype web application that serves tiles from cloud-optimized GeoTIFFs, with an emphasis on supporting planetary dataset

Daven Quinn 3 Mar 23, 2022
Reproducible nvim completion framework benchmarks.

Nvim.Bench Reproducible nvim completion framework benchmarks. Runs inside Docker. Fair and balanced Methodology Note: for all "randomness", they are g

i love my dog 14 Nov 20, 2022
PyToQlik is a library that allows you to integrate Qlik Desktop with Jupyter notebooks

PyToQlik is a library that allows you to integrate Qlik Desktop with Jupyter notebooks. With it you can: Open and edit a Qlik app inside a Ju

BIX Tecnologia 16 Sep 09, 2022
FBChecker Account using python , package requests and web old facebook

fbcek FBChecker Account using python , package requests and web old facebook using python 3.x apt upgrade -y apt update -y pkg install bash -y pkg ins

XnuxersXploitXen 5 Dec 24, 2022
In this project we will be using OpenCV to virtually drag a rectangle and drop it at a different location. It will be further used for Virtual Mouse.

Virtual Drag & Drog using OpenCV In this project we will be using OpenCV to virtually drag a rectangle and drop it at a different location. It will be

Hassan Shahzad 5 Sep 27, 2021
Collie is for uncovering RDMA NIC performance anomalies

Collie is for uncovering RDMA NIC performance anomalies. Overview Prerequ

Bytedance Inc. 34 Dec 11, 2022
personal dotfiles for rolling release linux distros

dotfiles Screenshots: Directions: Deploy my dotfiles with yadm Packages from arch listed in .installed-packages Information on osu! see ~/Games/osu!/.

-pacer- 0 Sep 18, 2022
This is a simple quizz which can ask user for login/register session, then consult to the Quiz interface.

SIMPLE-QUIZ- This is a simple quizz which can ask user for login/register session, then consult to the Quiz interface. By CHAKFI Ahmed MASTER SYSTEMES

CHAKFI Ahmed 1 Jan 10, 2022
Fofa asset consolidation script

资产收集+C段整理二合一 基于fofa资产搜索引擎进行资产收集,快速检索目标条件下的IP,URL以及标题,适用于资产较多时对模糊资产的快速检索,新增C段整理功能,整理出

白泽Sec安全实验室 36 Dec 01, 2022
A tool for fixing inconsistent timestamp metadata (atime, ctime, and mtime).

Mtime Fixer Mtime Fixer is a tool for fixing inconsistent timestamp metadata (atime, ctime, and mtime). Sometimes timestamp metadata of folders are in

Halit Şimşek 2 Jan 11, 2022
PSP (Python Starter Package) is meant for those who want to start coding in python but are new to the coding scene.

Python Starter Package PSP (Python Starter Package) is meant for those who want to start coding in python, but are new to the coding scene. We include

Giter/ 1 Nov 20, 2021
Checking-For-Fibonacci-Syquence-In-Python - Checking For Fibonacci Syquence In Python

Checking-For-Fibonacci-Syquence-In-Python The Fibonacci sequence is a set of num

John Michael Oliba 1 Feb 14, 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
(Pre-)compromise operations for MITRE CALDERA

(Pre-)compromise operations for CALDERA Extend your CALDERA operations over the entire adversary killchain. In contrast to MITRE's access plugin, cald

Diederik Bakker 3 Aug 22, 2022
ERPNext Easy Letterhead

ERPNext Easy Letterhead Intro Quality letterheads are a problem for non-technical users. So we've built (really hacked together) a slightly easier sol

Bantoo 3 Jan 02, 2023
A simple method to create strong password.

A simple method to create strong password.

1 Jan 23, 2022