scholarly journals BigStitcher: Reconstructing high-resolution image datasets of cleared and expanded samples

2018 ◽  
Author(s):  
David Hörl ◽  
Fabio Rojas Rusak ◽  
Friedrich Preusser ◽  
Paul Tillberg ◽  
Nadine Randel ◽  
...  
Keyword(s):  
High Resolution ◽  
Single Cell ◽  
Light Sheet ◽  
Resolution Image ◽  
Light Sheet Microscopy ◽  
High Resolution Image ◽  
Biological Objects ◽  
New Methods ◽  
Biological Studies ◽  
Optical Effects

New methods for clearing and expansion of biological objects create large, transparent samples that can be rapidly imaged using light-sheet microscopy. Resulting image acquisitions are terabytes in size and consist of many large, unaligned image tiles that suffer from optical distortions. We developed the BigStitcher software that efficiently handles and reconstructs large multi-tile, multi-view acquisitions compensating all major optical effects, thereby making single-cell resolved whole-organ datasets amenable to biological studies.

Radiation Damage, Contrast and Statistics in High Resolution Biological Electron Microscopy

1970 ◽  
Vol 28 ◽  
pp. 260-261
Author(s):  
Robert M. Glaeser
Keyword(s):  
High Resolution ◽  
Particle Flux ◽  
Unit Area ◽  
Signal To Noise ◽  
Resolution Image ◽  
High Resolution Image ◽  
Pass Through ◽  
Counting Statistics ◽  
The Relationship ◽  
Picture Element

It is well known that a large flux of electrons must pass through a specimen in order to obtain a high resolution image while a smaller particle flux is satisfactory for a low resolution image. The minimum particle flux that is required depends upon the contrast in the image and the signal-to-noise (S/N) ratio at which the data are considered acceptable. For a given S/N associated with statistical fluxtuations, the relationship between contrast and “counting statistics” is s131_eqn1, where C = contrast; r2 is the area of a picture element corresponding to the resolution, r; N is the number of electrons incident per unit area of the specimen; f is the fraction of electrons that contribute to formation of the image, relative to the total number of electrons incident upon the object.

New method for tree stands parameters determination using high resolution images done by unmanned aerial vehicle

2016 ◽  
Author(s):  
А.С. Алексеев ◽  
А.А. Никифоров ◽  
А.А. Михайлова ◽  
М.Р. Вагизов
Keyword(s):  
High Resolution ◽  
Unmanned Aerial Vehicle ◽  
New Method ◽  
Growth And Yield ◽  
Special Treatment ◽  
Resolution Image ◽  
Growing Stock ◽  
High Resolution Image ◽  
Aerial Vehicle ◽  
Area Unit

В связи со старением информационных материалов о состоянии лесов существует потребность в разработке новых методов таксации древостоев, основанных на применении последних научно-технических достижений в области теории структуры и продуктивности древостоев, дистанционных методов изучения лесов, информационных и ГИС технологий. В статье приведены результаты разработки и проверки нового метода определения таксационных характеристик сомкнутых насаждений на основе правила 3/2 и подобных ему правил Хильми и Рейнеке, с одной стороны, и определения числа деревьев на единице площади по снимку сверх высокого разрешения, полученного с помощью БПЛА, с другой. С теоретической точки зрения эта зависимости величин запаса, средней высоты и среднего диаметра от числа стволов на единице площади относятся к классу аллометрических связей, очень часто встречающихся при количественном описании соотношений частей биологических систем разных уровней иерархии, от организмов до экосистем. Параметры аллометрических зависимостей запаса, средних высоты и диаметра от числа стволов на единице площади были определены для основных лесообразующих пород по данным таблиц хода роста нормальных (полных) древостоев с теоретическим показателем степени и затем использованы для расчетов. Число деревьев на единице площади определялось по снимку с разрешением 7,13 см/пиксель, полученному с помощью 4-роторной платформы. Обработка материалов аэрофотосъемки была выполнена в специализированной фотограмметрической системе Agisoft Photoscan. В результате были получены ортофотоплан и цифровая модель поверхности крон деревьев на изучаемую территорию с определением их высот. Для автоматизированной обработки полученных изображений с целью получения значений числа деревьев на единицу площади был создан специализированный скрипт на языке Java. Погрешности определения таксационных характеристик древостоев предлагаемым методом не выше установленных действующими нормативными материалами. Every time there is a demand for new innovative methods of forest resources estimation based on last achievements in theoretical science, remote sensing methods, information and GIS-technologies. In the paper are presented a new method and the results of its application to forest stands growing stock, mean height and diameter determination. The method is based on rule 3/2 and similar Reineke and Hilmy rules, on one hand and high resolution image made by unmanned aerial vehicle, which used for determination of number of trees per area unit, on other. The above rules are well known in quantitative biology as an allometric and widely used for description of different kind of relations in biological systems of various scale: from organisms to ecosystems. Parameters of above allometric relationships between growing stock, mean height and diameter and stems density per area unit was determine on the base of full stock growth and yield tables for main tree species and after used for experimental calculations. The number of trees per area unit was determined after special treatment of high resolution image made by unmanned flying machine. The growing stock, mean height and diameter determined by suggested method was compared with the data of regular forest inventory. Comparison gives positive result and method may be recommended for further development.

An automatic analysis method for in situ hybridization using high-resolution image analysis

1989 ◽  
Vol 281 (5) ◽  
pp. 336-341 ◽  
Author(s):  
W. Stolz ◽  
K. Scharffetter ◽  
W. Abmayr ◽  
W. K�ditz ◽  
T. Krieg
Keyword(s):  
Image Analysis ◽  
In Situ Hybridization ◽  
High Resolution ◽  
Automatic Analysis ◽  
Analysis Method ◽  
Resolution Image ◽  
High Resolution Image

scholarly journals Super Resolution Digital Image Correlation (SR-DIC): an Alternative to Image Stitching at High Magnifications

2021 ◽  
Author(s):  
R. S. Hansen ◽  
D. W. Waldram ◽  
T. Q. Thai ◽  
R. B. Berke
Keyword(s):  
High Resolution ◽  
Digital Image Correlation ◽  
Spatial Resolution ◽  
Digital Image ◽  
Super Resolution ◽  
Image Correlation ◽  
Low Resolution ◽  
Strain Measurements ◽  
Resolution Image ◽  
High Resolution Image

Abstract Background High-resolution Digital Image Correlation (DIC) measurements have previously been produced by stitching of neighboring images, which often requires short working distances. Separately, the image processing community has developed super resolution (SR) imaging techniques, which improve resolution by combining multiple overlapping images. Objective This work investigates the novel pairing of super resolution with digital image correlation, as an alternative method to produce high-resolution full-field strain measurements. Methods First, an image reconstruction test is performed, comparing the ability of three previously published SR algorithms to replicate a high-resolution image. Second, an applied translation is compared against DIC measurement using both low- and super-resolution images. Third, a ring sample is mechanically deformed and DIC strain measurements from low- and super-resolution images are compared. Results SR measurements show improvements compared to low-resolution images, although they do not perfectly replicate the high-resolution image. SR-DIC demonstrates reduced error and improved confidence in measuring rigid body translation when compared to low resolution alternatives, and it also shows improvement in spatial resolution for strain measurements of ring deformation. Conclusions Super resolution imaging can be effectively paired with Digital Image Correlation, offering improved spatial resolution, reduced error, and increased measurement confidence.

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