scholarly journals PlantCV v2: Image analysis software for high-throughput plant phenotyping

PeerJ ◽  
2017 ◽  
Vol 5 ◽  
pp. e4088 ◽  
Author(s):  
Malia A. Gehan ◽  
Noah Fahlgren ◽  
Arash Abbasi ◽  
Jeffrey C. Berry ◽  
Steven T. Callen ◽  
...  
Keyword(s):  
Image Processing ◽  
Computer Vision ◽  
Image Analysis ◽  
Image Data ◽  
Plant Phenotyping ◽  
Analysis Software ◽  
Computational Tools ◽  
Landmark Identification ◽  
Plant Image ◽  
Leaf Segmentation

Systems for collecting image data in conjunction with computer vision techniques are a powerful tool for increasing the temporal resolution at which plant phenotypes can be measured non-destructively. Computational tools that are flexible and extendable are needed to address the diversity of plant phenotyping problems. We previously described the Plant Computer Vision (PlantCV) software package, which is an image processing toolkit for plant phenotyping analysis. The goal of the PlantCV project is to develop a set of modular, reusable, and repurposable tools for plant image analysis that are open-source and community-developed. Here we present the details and rationale for major developments in the second major release of PlantCV. In addition to overall improvements in the organization of the PlantCV project, new functionality includes a set of new image processing and normalization tools, support for analyzing images that include multiple plants, leaf segmentation, landmark identification tools for morphometrics, and modules for machine learning.

scholarly journals PlantCV v2.0: Image analysis software for high-throughput plant phenotyping

2017 ◽  
Author(s):  
Malia A Gehan ◽  
Noah Fahlgren ◽  
Arash Abbasi ◽  
Jeffrey C Berry ◽  
Steven T Callen ◽  
...  
Keyword(s):  
Image Processing ◽  
Computer Vision ◽  
Image Analysis ◽  
Image Data ◽  
Plant Phenotyping ◽  
Analysis Software ◽  
Computational Tools ◽  
Landmark Identification ◽  
Plant Image ◽  
Leaf Segmentation

Systems for collecting image data in conjunction with computer vision techniques are a powerful tool for increasing the temporal resolution at which plant phenotypes can be measured non-destructively. Computational tools that are flexible and extendable are needed to address the diversity of plant phenotyping problems. We previously described the Plant Computer Vision (PlantCV) software package, which is an image processing toolkit for plant phenotyping analysis. The goal of the PlantCV project is to develop a set of modular, reusable, and repurposable tools for plant image analysis that are open-source and community-developed. Here we present the details and rationale for major developments in the second major release of PlantCV. In addition to overall improvements in the organization of the PlantCV project, new functionality includes a set of new image processing and normalization tools, support for analyzing images that include multiple plants, leaf segmentation, landmark identification tools for morphometrics, and modules for machine learning.

scholarly journals PlantCV v2.0: Image analysis software for high-throughput plant phenotyping

2017 ◽  
Author(s):  
Malia A Gehan ◽  
Noah Fahlgren ◽  
Arash Abbasi ◽  
Jeffrey C Berry ◽  
Steven T Callen ◽  
...  
Keyword(s):  
Image Processing ◽  
Computer Vision ◽  
Image Analysis ◽  
Image Data ◽  
Plant Phenotyping ◽  
Analysis Software ◽  
Computational Tools ◽  
Landmark Identification ◽  
Plant Image ◽  
Leaf Segmentation

Systems for collecting image data in conjunction with computer vision techniques are a powerful tool for increasing the temporal resolution at which plant phenotypes can be measured non-destructively. Computational tools that are flexible and extendable are needed to address the diversity of plant phenotyping problems. We previously described the Plant Computer Vision (PlantCV) software package, which is an image processing toolkit for plant phenotyping analysis. The goal of the PlantCV project is to develop a set of modular, reusable, and repurposable tools for plant image analysis that are open-source and community-developed. Here we present the details and rationale for major developments in the second major release of PlantCV. In addition to overall improvements in the organization of the PlantCV project, new functionality includes a set of new image processing and normalization tools, support for analyzing images that include multiple plants, leaf segmentation, landmark identification tools for morphometrics, and modules for machine learning.

scholarly journals Maize-IAS: a maize image analysis software using deep learning for high-throughput plant phenotyping

Plant Methods ◽  
2021 ◽  
Vol 17 (1) ◽  
Author(s):  
Shuo Zhou ◽  
Xiujuan Chai ◽  
Zixuan Yang ◽  
Hongwu Wang ◽  
Chenxue Yang ◽  
...  
Keyword(s):  
Computer Vision ◽  
Image Analysis ◽  
Deep Learning ◽  
High Throughput ◽  
Batch Processing ◽  
Plant Phenotyping ◽  
Plant Science ◽  
Analysis Software ◽  
Image Analysis Software ◽  
Maize Growth

Abstract Background Maize (Zea mays L.) is one of the most important food sources in the world and has been one of the main targets of plant genetics and phenotypic research for centuries. Observation and analysis of various morphological phenotypic traits during maize growth are essential for genetic and breeding study. The generally huge number of samples produce an enormous amount of high-resolution image data. While high throughput plant phenotyping platforms are increasingly used in maize breeding trials, there is a reasonable need for software tools that can automatically identify visual phenotypic features of maize plants and implement batch processing on image datasets. Results On the boundary between computer vision and plant science, we utilize advanced deep learning methods based on convolutional neural networks to empower the workflow of maize phenotyping analysis. This paper presents Maize-IAS (Maize Image Analysis Software), an integrated application supporting one-click analysis of maize phenotype, embedding multiple functions: (I) Projection, (II) Color Analysis, (III) Internode length, (IV) Height, (V) Stem Diameter and (VI) Leaves Counting. Taking the RGB image of maize as input, the software provides a user-friendly graphical interaction interface and rapid calculation of multiple important phenotypic characteristics, including leaf sheath points detection and leaves segmentation. In function Leaves Counting, the mean and standard deviation of difference between prediction and ground truth are 1.60 and 1.625. Conclusion The Maize-IAS is easy-to-use and demands neither professional knowledge of computer vision nor deep learning. All functions for batch processing are incorporated, enabling automated and labor-reduced tasks of recording, measurement and quantitative analysis of maize growth traits on a large dataset. We prove the efficiency and potential capability of our techniques and software to image-based plant research, which also demonstrates the feasibility and capability of AI technology implemented in agriculture and plant science.

scholarly journals An online database for plant image analysis software tools

Plant Methods ◽  
2013 ◽  
Vol 9 (1) ◽  
pp. 38 ◽  
Author(s):  
Guillaume Lobet ◽  
Xavier Draye ◽  
Claire Périlleux
Keyword(s):  
Image Analysis ◽  
Software Tools ◽  
Online Database ◽  
Analysis Software ◽  
Image Analysis Software ◽  
Plant Image

Image Capture Board for The PC

1995 ◽  
Vol 32 (3) ◽  
pp. 235-255
Author(s):  
T. David Binnie ◽  
I. Reading
Keyword(s):  
Image Processing ◽  
Computer Vision ◽  
Personal Computer ◽  
Low Cost ◽  
Random Access ◽  
Image Data ◽  
Image Capture ◽  
Design And Implementation

Image capture board for the PC We report the design and implementation of a low cost, image capture board for an IBM type personal computer. The board is particularly suited to computer vision education. The board provides: image capture at video rate, random access to xy addressable image data, and options for on-board image processing hardware.

scholarly journals Special issue on computer vision and image analysis in plant phenotyping

2016 ◽  
Vol 27 (5) ◽  
pp. 607-609 ◽  
Author(s):  
Hanno Scharr ◽  
Hannah Dee ◽  
Andrew P. French ◽  
Sotirios A. Tsaftaris
Keyword(s):  
Computer Vision ◽  
Image Analysis ◽  
Plant Phenotyping ◽  
Special Issue

scholarly journals ImageM: a user-friendly interface for the processing of multi-dimensional images with Matlab

F1000Research ◽  
2021 ◽  
Vol 10 ◽  
pp. 333
Author(s):  
David Legland ◽  
Marie-Françoise Devaux
Keyword(s):  
Image Processing ◽  
Image Analysis ◽  
User Interface ◽  
Image Data ◽  
Image Visualization ◽  
Image Processing Algorithms ◽  
Processing Algorithms ◽  
Spatial Calibration ◽  
User Friendly ◽  
Efficient Software

Modern imaging devices provide a wealth of data often organized as images with many dimensions, such as 2D/3D, time and channel. Matlab is an efficient software solution for image processing, but it lacks many features facilitating the interactive interpretation of image data, such as a user-friendly image visualization, or the management of image meta-data (e.g. spatial calibration), thus limiting its application to bio-image analysis. The ImageM application proposes an integrated user interface that facilitates the processing and the analysis of multi-dimensional images within the Matlab environment. It provides a user-friendly visualization of multi-dimensional images, a collection of image processing algorithms and methods for analysis of images, the management of spatial calibration, and facilities for the analysis of multi-variate images. ImageM can also be run on the open source alternative software to Matlab, Octave. ImageM is freely distributed on GitHub: https://github.com/mattools/ImageM.

scholarly journals An Image Detection Method Based on Parameter Optimization of Support Vector Machine

2021 ◽  
Vol 15 ◽  
pp. 306-314
Author(s):  
Zhanshen Feng
Keyword(s):  
Image Processing ◽  
Computer Vision ◽  
Support Vector Machine ◽  
Parameter Optimization ◽  
Visual Processing ◽  
Image Data ◽  
Image Features ◽  
Classification Model ◽  
Support Vector ◽  
Image Detection

With the progress and development of multimedia image processing technology, and the rapid growth of image data, how to efficiently extract the interesting and valuable information from the huge image data, and effectively filter out the redundant data, these have become an urgent problem in the field of image processing and computer vision. In recent years, as one of the important branches of computer vision, image detection can assist and improve a series of visual processing tasks. It has been widely used in many fields, such as scene classification, visual tracking, object redirection, semantic segmentation and so on. Intelligent algorithms have strong non-linear mapping capability, data processing capacity and generalization ability. Support vector machine (SVM) by using the structural risk minimization principle constructs the optimal classification hyper-plane in the attribute space to make the classifier get the global optimum and has the expected risk meet a certain upper bound at a certain probability in the entire sample space. This paper combines SVM and artificial fish swarm algorithm (AFSA) for parameter optimization, builds AFSA-SVM classification model to achieve the intelligent identification of image features, and provides reliable technological means to accelerate sensing technology. The experiment result proves that AFSA-SVM has better classification accuracy and indicates that the algorithm of this paper can effectively realize the intelligent identification of image features.

scholarly journals An Efficient Preprocessing Algorithm for Image-based Plant Phenotyping

2018 ◽  
Author(s):  
Hesam Attari ◽  
Ali Ghafari-Beranghar
Keyword(s):  
Image Segmentation ◽  
Plant Growth ◽  
Human Life ◽  
Color Space ◽  
Plant Phenotyping ◽  
Plant Growth And Development ◽  
Analysis Software ◽  
Plant Knowledge ◽  
Biological Part ◽  
Plant Image

Plants are such important keys of biological part of our environment, supply the human life and creatures. Understanding how the plant’s functions react with our surroundings, helps us better to make plant growth and development of food products. It means the plant phenotyping gives us bio information which needs some tools to reach the plant knowledge. Imaging tools is one of the phenotyping solutions which consists of imaging hardware such as the camera and image analysis software analyses the plant images changings such as plant growth rates. In this paper, we proposed a preprocessing algorithm to eliminate the noise and separate foreground from the background which results the plant image to help the plant image segmentation. The preprocessing is one of important levels has effect on better image segmentation and finally better plant’s image labeling and analysis. Our proposed algorithm is focused on removing noise such as converting the color space, applying the filters and local adaptive binarization step such as Niblack. Finally, we evaluate our algorithm with other algorithms by testing a variety of binarization methods.

scholarly journals Review And Analysis Of Computer Vision Algorithms

2021 ◽  
Vol 03 (05) ◽  
pp. 245-250
Author(s):  
Bakhtiyar Saidovich Rakhimov ◽  
◽  
Feroza Bakhtiyarovna Rakhimova ◽  
Sabokhat Kabulovna Sobirova ◽  
Furkat Odilbekovich Kuryazov ◽  
...  
Keyword(s):  
Image Processing ◽  
Computer Vision ◽  
Image Analysis ◽  
Noise Suppression ◽  
Color Correction ◽  
Scientific Discipline ◽  
Specific Information ◽  
Two Dimensional ◽  
Image Transformation ◽  
Almost All

Computer vision as a scientific discipline refers to the theories and technologies for creating artificial systems that receive information from an image. Despite the fact that this discipline is quite young, its results have penetrated almost all areas of life. Computer vision is closely related to other practical fields like image processing, the input of which is two-dimensional images obtained from a camera or artificially created. This form of image transformation is aimed at noise suppression, filtering, color correction and image analysis, which allows you to directly obtain specific information from the processed image. This information may include searching for objects, keypoints, segments, and annexes;

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