GinJinn: An object‐detection pipeline for automated feature extraction from herbarium specimens

Premise The generation of morphological data in evolutionary, taxonomic, and ecological studies of plants using herbarium material has traditionally been a labor‐intensive task. Recent progress in machine learning using deep artificial neural networks (deep learning) for image classification and object detection has facilitated the establishment of a pipeline for the automatic recognition and extraction of relevant structures in images of herbarium specimens. Methods and Results We implemented an extendable pipeline based on state‐of‐the‐art deep‐learning object‐detection methods to collect leaf images from herbarium specimens of two species of the genus Leucanthemum . Using 183 specimens as the training data set, our pipeline extracted one or more intact leaves in 95% of the 61 test images. Conclusions We establish GinJinn as a deep‐learning object‐detection tool for the automatic recognition and extraction of individual leaves or other structures from herbarium specimens. Our pipeline offers greater flexibility and a lower entrance barrier than previous image‐processing approaches based on hand‐crafted features

Towards Ultra-High Resolution Fibre Tract Mapping of the Human Brain – Registration of Polarised Light Images and Reorientation of Fibre Vectors

Polarised light imaging (PLI) utilises the birefringence of the myelin sheaths in order to visualise the orientation of nerve fibres in microtome sections of adult human post-mortem brains at ultra-high spatial resolution. The preparation of post-mortem brains for PLI involves fixation, freezing and cutting into 100-μm-thick sections. Hence, geometrical distortions of histological sections are inevitable and have to be removed for 3D reconstruction and subsequent fibre tracking. We here present a processing pipeline for 3D reconstruction of these sections using PLI derived multimodal images of post-mortem brains. Blockface images of the brains were obtained during cutting; they serve as reference data for alignment and elimination of distortion artefacts. In addition to the spatial image transformation, fibre orientation vectors were reoriented using the transformation fields, which consider both affine and subsequent non-linear registration. The application of this registration and reorientation approach results in a smooth fibre vector field, which reflects brain morphology. PLI combined with 3D reconstruction and fibre tracking is a powerful tool for human brain mapping. It can also serve as an independent method for evaluating in vivo fibre tractography

Microstructure Evolution of a New Precipitation-Strengthened Fe–Al–Ni–Ti Alloy down to Atomic Scale

Ferritic materials consisting of a disordered matrix and a significant volume fraction of ordered intermetallic precipitates have recently gained attention due to their favorable properties regarding high-temperature applicability. Alloys strengthened by Heusler-type precipitates turned out to show promising properties at elevated temperatures, e.g., creep resistance. The present work aims at developing a fundamental understanding of the microstructure of an alloy with a nominal composition of 60Fe–20Al–10Ni–10Ti (in at. %). In order to determine the microstructural evolution, prevailing phases and corresponding phase transformation temperatures are investigated. Differential thermal analysis, high-temperature X-ray diffraction, and special heat treatments were performed. The final microstructures are characterized by means of scanning and transmission electron microscopy along with hardness measurements. Atom probe tomography conducted on alloys of selected heat-treated conditions allows for evaluating the chemical composition and spatial arrangement of the constituent phases. All investigated sample conditions showed microstructures consisting of two phases with crystal structures A2 and L21. The L21 precipitates grew within a continuous A2 matrix. Due to a rather small lattice mismatch, matrix–precipitate interfaces are either coherent or semicoherent depending on the cooling condition after heat treatment

Методичні вказівки і контрольні завдання з курсу "Високотемпературні теплотехнологічні установки"

Високотемпературні процеси є основними робочими процесами в ряді технологічних виробництв, таких, як виробництво коксу, чавуну, сталі та кольорових металів, випал кераміки і вогнетривів, випал в’яжучих матеріалів, варіння скла, високотемпературне нагрівання злитків, отримання агломерату, феросплавів та ін. У процесі вивчення дисципліни «Високотемпературні установки» (ВТУ) необхідно освоїти методи практичного розрахунку теплового стану злитка в процесі нагрівання, визначити вплив окремих факторів на калориметричну, а відповідно і на пірометричнy температуру горіння. Вміти самостійно вибрати вогнетривкі та ізоляційні матеріали для печі заданих розмірів і теплотехнологічних умов, скласти тепловий баланс печі і визначити годинну, секундну та питому витрату заданого і умовного палива. Для термічної соляної печі з електричним нагріванням визначити час розігріву печі з холодного стану при використанні в кладці різних вогнетривів. Зіставити результати розрахунку і оцінити енергоефективність заходів. Усі завдання оформляються на аркушах формату А4 або в окремих зошитах

Calibration of TCCON column-averaged CO2: the first aircraft campaign over European TCCON sites

The Total Carbon Column Observing Network (TCCON) is a ground-based network of Fourier Transform Spectrometer (FTS) sites around the globe, where the column abundances of CO2, CH4, N2O, CO and O2 are measured. CO2 is constrained with a precision better than 0.25% (1-σ). To achieve a similarly high accuracy, calibration to World Meteorological Organization (WMO) standards is required. This paper introduces the first aircraft calibration campaign of five European TCCON sites and a mobile FTS instrument. A series of WMO standards in-situ profiles were obtained over European TCCON sites via aircraft and compared with retrievals of CO2 column amounts from the TCCON instruments. The results of the campaign show that the FTS measurements are consistently biased 1.1% ± 0.2% low with respect to WMO standards, in agreement with previous TCCON calibration campaigns. The standard a priori profile for the TCCON FTS retrievals is shown to not add a bias. The same calibration factor is generated using aircraft profiles as a priori and with the TCCON standard a priori. With a calibration to WMO standards, the highly precise TCCON CO2 measurements of total column concentrations provide a suitable database for the calibration and validation of nadir-viewing satellite

Imaging features of fibrolamellar hepatocellular carcinoma in gadoxetic acid-enhanced MRI

Background: Fibrolamellar hepatocellular carcinoma (FLC) is a rare malignancy occurring in young patients without cirrhosis. Objectives of our study were to analyze contrast material uptake in hepatobiliary phase imaging (HBP) in gadoxetic acid-enhanced liver MRI in patients with FLC and to characterize imaging features in sequence techniques other than HBP. Methods: In this retrospective study on histology-proven FLC, contrast material uptake in HBP was quantitatively assessed by calculating the corrected FLC enhancement index (CEI) using mean signal intensities of FLC and lumbar muscle on pre-contrast imaging and HBP, respectively. Moreover, enhancement patterns in dynamic contrast-enhanced MRI and relative signal intensities compared with background liver parenchyma were determined by two radiologists in consensus for HBP, diffusion-weighted imaging using high b-values (DWI), and T2 and T1 weighted pre-contrast imaging. Results: In 6 of 13 patients with FLC gadoxetic acid-enhanced liver MRI was available. The CEI suggested presence of HBP contrast material uptake in all FLCs. A mean CEI of 1.35 indicated FLC signal increase of 35% in HBP compared with pre-contrast imaging. All FLCs were hypointense in HBP compared with background liver parenchyma. Three of 6 FLCs had arterial hyperenhancement and venous wash-out. In DWI and T2 weighted imaging, 5 of 6 FLCs were hyperintense. In T1 weighted imaging, 5 of 6 FLCs were hypointense. Conclusion: Hepatobiliary uptake of gadoxetic acid was quantitatively measurable in all FLCs investigated in our study. The observation of hypointensity of FLCs in HBP compared with background liver parenchyma emphasizes the role of gadoxetic acid-enhanced liver MRI for non-invasive diagnosis of FLC and its importance in the diagnostic work-up of indeterminate liver lesions

A Deep Learning Algorithm for Prediction of Age-Related Eye Disease Study Severity Scale for Age-Related Macular Degeneration from Color Fundus Photography

Acknowledgments The authors thank the Age-Related Eye Disease Study participants and the Age-Related Eye Disease Study Research Group for their valuable contribution to this research, and all study participants for contributing to the Cooperative Health Research in the Region of Augsburg study.Peer reviewedPublisher PD

3D analysis of Osteosyntheses material using semi-automated CT segmentation: a case series of a 4 corner fusion plate

Backround: Scaphoidectomy and midcarpal fusion can be performed using traditional fixation methods like K-wires, staples, screws or different dorsal (non) locking arthrodesis systems. The aim of this study is to test the Aptus four corner locking plate and to compare the clinical findings to the data revealed by CT scans and semi-automated segmentation. Methods: This is a retrospective review of eleven patients suffering from scapholunate advanced collapse (SLAC) or scaphoid non-union advanced collapse (SNAC) wrist, who received a four corner fusion between August 2011 and July 2014. The clinical evaluation consisted of measuring the range of motion (ROM), strength and pain on a visual analogue scale (VAS). Additionally, the Disabilities of the Arm, Shoulder and Hand (QuickDASH) and the Mayo Wrist Score were assessed. A computerized tomography (CT) of the wrist was obtained six weeks postoperatively. After semi-automated segmentation of the CT scans, the models were post processed and surveyed. Results: During the six-month follow-up mean range of motion (ROM) of the operated wrist was 60 degrees, consisting of 30 degrees extension and 30 degrees flexion. While pain levels decreased significantly, 54% of grip strength and 89% of pinch strength were preserved compared to the contralateral healthy wrist. Union could be detected in all CT scans of the wrist. While X-ray pictures obtained postoperatively revealed no pathology, two user related technical complications were found through the 3D analysis, which correlated to the clinical outcome. Conclusion: Due to semi-automated segmentation and 3D analysis it has been proved that the plate design can keep up to the manufacturers' promises. Over all, this case series confirmed that the plate can compete with the coexisting techniques concerning clinical outcome, union and complication rate