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Multi-template matching: a versatile tool for object-localization in microscopy images

Publishing date: 2020-03-03 Published on: BMC Bioinformatics summary: The localization of objects of interest is a key initial step in most image analysis workflows. For biomedical image data, classical image-segmentation methods like thresholding or edge detection are typically used.

PANEV: an R package for a pathway-based network visualization

Publishing date: 2020-03-03 Published on: BMC Bioinformatics summary: None authors: Valentino Palombo, Marco Milanesi, Gabriella Sferra, Stefano Capomaccio, Sandy Sgorlon & Mariasilvia D’Andrea link to paper: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-020-3371-7 Icons made by catkuro from www.

pyKNEEr: An image analysis workflow for open and reproducible research on femoral knee cartilage

Publishing date: 2020-03-03 Published on: PLOS ONE summary: Channel Editor Summary: Sometimes, all the available algorithms to perform a scientific task are either closed source, or just too complex to easily be re-used by others.

Repository-based plasmid design

Publishing date: 2020-03-03 Published on: PLOS ONE summary: There was an explosion in the amount of commercially available DNA in sequence repositories over the last decade. The number of such plasmids increased from 12,000 to over 300,000 among three of the largest repositories: iGEM, Addgene, and DNASU.

XPRESSyourself: Enhancing, standardizing, and automating ribosome profiling computational analyses yields improved insight into data

Publishing date: 2020-03-03 Published on: PLOS Computational Biology summary: Ribosome profiling, an application of nucleic acid sequencing for monitoring ribosome activity, has revolutionized our understanding of protein translation dynamics. This technique has been available for a decade, yet the current state and standardization of publicly available computational tools for these data is bleak.

RAINBOW: Haplotype-based genome-wide association study using a novel SNP-set method

Publishing date: 2020-02-14 Published on: PLOS Computational Biology summary: None authors: Kosuke Hamazaki, Hiroyoshi Iwata link to paper: 10.1371/journal.pcbi.1007663 Icons made by catkuro from www.flaticon.com

A low-cost fluorescence reader for in vitro transcription and nucleic acid detection with Cas13a

Publishing date: 2020-02-07 Published on: PLOS ONE summary: None authors: Florian Katzmeier, Lukas Aufinger, Aurore Dupin, Jorge Quintero, Matthias Lenz, Ludwig Bauer, Sven Klumpe, Dawafuti Sherpa, Benedikt Dürr, Maximilian Honemann, Igor Styazhkin, Friedrich C.

A plug-and-play Hyperspectral Imaging Sensor using low-cost equipment

Publishing date: 2020-02-07 Published on: Hardware X summary: Hyperspectral Imaging Sensors (HSI) obtain spectral information from an object, and they are used to solve problems in Remote Sensing, Food Analysis, Precision Agriculture, and others.

An arbitrary-spectrum spatial visual stimulator for vision research

Publishing date: 2020-02-07 Published on: eLife summary: Visual neuroscientists require accurate control of visual stimulation. However, few stimulator solutions offer high spatio-temporal resolution and free control over the spectra of the light sources, because they rely on off-the-shelf technology developed for human trichromatic vision.

An Open-Source, Automated Home-Cage Sipper Device for Monitoring Liquid Ingestive Behavior in Rodents

Publishing date: 2020-02-07 Published on: eNeuro summary: None authors: Elizabeth Godynyuk, Maya N. Bluitt, Jessica R. Tooley, Alexxai V. Kravitz and Meaghan C. Creed link to paper: https://www.eneuro.org/content/6/5/ENEURO.0292-19.2019 Icons made by catkuro from www.