Fully automatic detection and classification of phytoplankton specimens in digital microscopy images

2021 ◽  
Vol 200 ◽  
pp. 105923
Author(s):  
David Rivas-Villar ◽  
José Rouco ◽  
Rafael Carballeira ◽  
Manuel G. Penedo ◽  
Jorge Novo
Keyword(s):  
Automatic Detection ◽  
Digital Microscopy ◽  
Fully Automatic ◽  
Microscopy Images

scholarly journals Automatic Pipeline for Detection and Classification of Phytoplankton Specimens in Digital Microscopy Images of Freshwater Samples

2021 ◽  
Vol 7 (1) ◽  
pp. 9
Author(s):  
David Rivas-Villar ◽  
José Rouco ◽  
Rafael Carballeira ◽  
Manuel G. Penedo ◽  
Jorge Novo
Keyword(s):  
Water Sources ◽  
Special Focus ◽  
Negative Effects ◽  
Fully Automatic ◽  
Target Set ◽  
Phytoplankton Blooming ◽  
Automatic Pipeline ◽  
Microscopy Images

Phytoplankton blooming can compromise the quality of the water and its safety due to the negative effects of the toxins that some species produce. Therefore, the continuous monitoring of water sources is typically required. This task is commonly and routinely performed by specialists manually, which represents a major limitation in the quality and quantity of these studies. We present an accurate methodology to automate this task using multi-specimen images of phytoplankton which are acquired by regular microscopes. The presented fully automatic pipeline is capable of detecting and segmenting individual specimens using classic computer vision algorithms. Furthermore, the method can fuse sparse specimens and colonies when needed. Moreover, the system can differentiate genuine phytoplankton from other similar non-phytoplanktonic objects like zooplankton and detritus. These genuine phytoplankton specimens can also be classified in a target set of species, with special focus on the toxin-producing ones. The experiments demonstrate satisfactory and accurate results in each one of the different steps that compose this pipeline. Thus, this fully automatic system can aid the specialists in the routine analysis of water sources.

scholarly journals Classification of endonasal HHT lesions using digital microscopy

2021 ◽  
Vol 16 (1) ◽  
Author(s):  
F. Haubner ◽  
A. Schneider ◽  
H. Schinke ◽  
M. Bertlich ◽  
B. G. Weiss ◽  
...  
Keyword(s):  
Quality Of Life ◽  
Treatment Modalities ◽  
Hereditary Haemorrhagic Telangiectasia ◽  
Digital Microscopy ◽  
Digital Microscope ◽  
Lower Severity ◽  
Gender Specific Differences ◽  
Vegf Level

Abstract Background Recurrent spontaneous epistaxis is the most common clinical manifestation and the most debilitating symptom in hereditary haemorrhagic telangiectasia (HHT) patients. To this date, there exist only a classification of HHT patients by different genetic mutations. There is no standard classification for the mucocutaneous endonasal manifestations of HHT. The aim of the present study was to document the variety of endonasal HHT lesions using digital microscopy and to propose a clinical classification. Methods We recorded the endonasal HHT lesions of 28 patients using a digital microscope. We reconstructed the 3D images und videos recorded by digital microscope afterwards and classified the endonasal lesions of HHT in two classes: Grade A, presence of only flat telangiectasias in the mucosa level and Grade B, (additional) presence of raised berry or wart-like telangiectasia spots. We investigated also Haemoglobin level by routine laboratory procedures, plasma VEGF level by ELISA, Severity of epistaxis by epistaxis severity score (ESS) and quality of life by a linear visual analogue scale (VAS). Results We found a higher quality of life and a lower severity of epistaxis in Grade A patients in comparison to Grade B patients. No difference in plasma VEGF level and in Haemoglobin between Grad A patients and Grade B patients could be detected. Plasma VEGF levels showed no gender specific differences. It could also not be correlated to the extranasal manifestation. Conclusion The classification for endonasal manifestation of HHT proposed in this study indicates severity of epistaxis und quality of life. Digital microscopy with the ability of 3D reconstruction of images presents a useful tool for such classifications. The classification of endonasal HHT lesions using digital microscopy allows to evaluate the dynamic of HHT lesions in the course of time independent of examiner. This allows also to evaluate the efficacy of the different treatment modalities by dynamic of HHT lesions. Moreover digital microscopy is very beneficial in academic teaching of rare diseases.

scholarly journals Fully automatic classification of breast cancer microarray images

2016 ◽  
Vol 3 (2) ◽  
pp. 348-359 ◽  
Author(s):  
Nastaran Dehghan Khalilabad ◽  
Hamid Hassanpour ◽  
Mohammad Reza Abbaszadegan
Keyword(s):  
Breast Cancer ◽  
Automatic Classification ◽  
Fully Automatic

scholarly journals Automated Three-Dimensional Detection and Shape Classification of Dendritic Spines from Fluorescence Microscopy Images

PLoS ONE ◽  
2008 ◽  
Vol 3 (4) ◽  
pp. e1997 ◽  
Author(s):  
Alfredo Rodriguez ◽  
Douglas B. Ehlenberger ◽  
Dara L. Dickstein ◽  
Patrick R. Hof ◽  
Susan L. Wearne
Keyword(s):  
Fluorescence Microscopy ◽  
Dendritic Spines ◽  
Three Dimensional ◽  
Shape Classification ◽  
Microscopy Images

scholarly journals Automatic segmentation and classification of seven-segment display digits on auroral images

2016 ◽  
Vol 5 (2) ◽  
pp. 305-314 ◽  
Author(s):  
Tuomas Savolainen ◽  
Daniel Keith Whiter ◽  
Noora Partamies
Keyword(s):  
Automatic Segmentation ◽  
Scientific Information ◽  
Spherical Mirror ◽  
Automatic Method ◽  
Time Period ◽  
Film Images ◽  
Fully Automatic ◽  
Night Sky

Abstract. In this paper we describe a new and fully automatic method for segmenting and classifying digits in seven-segment displays. The method is applied to a dataset consisting of about 7 million auroral all-sky images taken during the time period of 1973–1997 at camera stations centred around Sodankylä observatory in northern Finland. In each image there is a clock display for the date and time together with the reflection of the whole night sky through a spherical mirror. The digitised film images of the night sky contain valuable scientific information but are impractical to use without an automatic method for extracting the date–time from the display. We describe the implementation and the results of such a method in detail in this paper.

scholarly journals Automatic Detection of 3D Joint Erosion in Hand HR-pQCT: A Level Set-Based Approach

2021 ◽  
Author(s):  
Xuechen Zhang ◽  
Isaac Cheng ◽  
Shaojun Liu ◽  
Chenrui Li ◽  
Jinghao Xue ◽  
...  
Keyword(s):  
Level Set ◽  
Automatic Detection ◽  
Fully Automatic ◽  
Joint Erosion

In this paper, we propose a 3D fully automatic joint erosion algorithms for hand HR-pQCT, and its performance can reach consensus with human specialist.

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