An introduction to bioimage analysis - http://bioimagebook.github.io

Overview

Introduction to Bioimage Analysis

Jupyter Book Badge License: CC BY 4.0 Twitter

This book tries explain the main ideas of image analysis in a practical and engaging way.

It's written primarily for busy biologists who need to analyze images as part of their work -- but I hope others might find it useful as well.

The core content is based on my earlier handbook Analyzing fluorescence microscopy images with ImageJ (PDF, GitBook). This has been extensively revised, generalized and expanded; the new title reflects the fact that it's no longer entirely focussed on fluorescence images, nor on ImageJ -- although both still play a big role.

The biggest change is that it now exists as an open Jupyter Book. This makes the whole thing more maintainable for me, and interactive for anyone who reads it.

It's a work in progress, and probably always will be, but I hope you find it useful.

You can download the images used in the practical exercises here.

Title image

Owner
Bioimage Book
Bioimage Book
SwinTrack: A Simple and Strong Baseline for Transformer Tracking

SwinTrack This is the official repo for SwinTrack. A Simple and Strong Baseline Prerequisites Environment conda (recommended) conda create -y -n SwinT

LitingLin 196 Jan 04, 2023
[ICLR 2021, Spotlight] Large Scale Image Completion via Co-Modulated Generative Adversarial Networks

Large Scale Image Completion via Co-Modulated Generative Adversarial Networks, ICLR 2021 (Spotlight) Demo | Paper [NEW!] Time to play with our interac

Shengyu Zhao 373 Jan 02, 2023
MIM: MIM Installs OpenMMLab Packages

MIM provides a unified API for launching and installing OpenMMLab projects and their extensions, and managing the OpenMMLab model zoo.

OpenMMLab 254 Jan 04, 2023
3D2Unet: 3D Deformable Unet for Low-Light Video Enhancement (PRCV2021)

3DDUNET This is the code for 3D2Unet: 3D Deformable Unet for Low-Light Video Enhancement (PRCV2021) Conference Paper Link Dataset We use SMOID dataset

1 Jan 07, 2022
Proposed n-stage Latent Dirichlet Allocation method - A Novel Approach for LDA

n-stage Latent Dirichlet Allocation (n-LDA) Proposed n-LDA & A Novel Approach for classical LDA Latent Dirichlet Allocation (LDA) is a generative prob

Anıl Güven 4 Mar 07, 2022
A PaddlePaddle version of Neural Renderer, refer to its PyTorch version

Neural 3D Mesh Renderer in PadddlePaddle A PaddlePaddle version of Neural Renderer, refer to its PyTorch version Install Run: pip install neural-rende

AgentMaker 13 Jul 12, 2022
The 1st place solution of track2 (Vehicle Re-Identification) in the NVIDIA AI City Challenge at CVPR 2021 Workshop.

AICITY2021_Track2_DMT The 1st place solution of track2 (Vehicle Re-Identification) in the NVIDIA AI City Challenge at CVPR 2021 Workshop. Introduction

Hao Luo 91 Dec 21, 2022
Fermi Problems: A New Reasoning Challenge for AI

Fermi Problems: A New Reasoning Challenge for AI Fermi Problems are questions whose answer is a number that can only be reasonably estimated as a prec

AI2 15 May 28, 2022
An unreferenced image captioning metric (ACL-21)

UMIC This repository provides an unferenced image captioning metric from our ACL 2021 paper UMIC: An Unreferenced Metric for Image Captioning via Cont

hwanheelee 14 Nov 20, 2022
Keras code and weights files for popular deep learning models.

Trained image classification models for Keras THIS REPOSITORY IS DEPRECATED. USE THE MODULE keras.applications INSTEAD. Pull requests will not be revi

François Chollet 7.2k Dec 29, 2022
The spiritual successor to knockknock for PyTorch Lightning, get notified when your training ends

Who's there? The spiritual successor to knockknock for PyTorch Lightning, to get a notification when your training is complete or when it crashes duri

twsl 70 Oct 06, 2022
Generating Fractals on Starknet with Cairo

StarknetFractals Generating the mandelbrot set on Starknet Current Implementation generates 1 pixel of the fractal per call(). It takes a few minutes

Orland0x 10 Jul 16, 2022
Implementation of "StrengthNet: Deep Learning-based Emotion Strength Assessment for Emotional Speech Synthesis"

StrengthNet Implementation of "StrengthNet: Deep Learning-based Emotion Strength Assessment for Emotional Speech Synthesis" https://arxiv.org/abs/2110

RuiLiu 65 Dec 20, 2022
Expressive Body Capture: 3D Hands, Face, and Body from a Single Image

Expressive Body Capture: 3D Hands, Face, and Body from a Single Image [Project Page] [Paper] [Supp. Mat.] Table of Contents License Description Fittin

Vassilis Choutas 1.3k Jan 07, 2023
Python KNN model: Predicting a probability of getting a work visa. Tableau: Non-immigrant visas over the years.

The value of international students to the United States. Probability of getting a non-immigrant visa. Project timeline: Jan 2021 - April 2021 Project

Zinaida Dvoskina 2 Nov 21, 2021
TensorFlow implementation for Bayesian Modeling and Uncertainty Quantification for Learning to Optimize: What, Why, and How

Bayesian Modeling and Uncertainty Quantification for Learning to Optimize: What, Why, and How TensorFlow implementation for Bayesian Modeling and Unce

Shen Lab at Texas A&M University 8 Sep 02, 2022
EssentialMC2 Video Understanding

EssentialMC2 Introduction EssentialMC2 is a complete system to solve video understanding tasks including MHRL(representation learning), MECR2( relatio

Alibaba 106 Dec 11, 2022
DP-CL(Continual Learning with Differential Privacy)

DP-CL(Continual Learning with Differential Privacy) This is the official implementation of the Continual Learning with Differential Privacy. If you us

Phung Lai 3 Nov 04, 2022
HMLET (Hybrid-Method-of-Linear-and-non-linEar-collaborative-filTering-method)

Methods HMLET (Hybrid-Method-of-Linear-and-non-linEar-collaborative-filTering-method) Dynamically selecting the best propagation method for each node

Yong 7 Dec 18, 2022
SenseNet is a sensorimotor and touch simulator for deep reinforcement learning research

SenseNet is a sensorimotor and touch simulator for deep reinforcement learning research

59 Feb 25, 2022