Med-Mastodon

amen zwa, esq.My son, Ronan, who is double-majoring in <a href="https://mathstodon.xyz/tags/biochemistry" class="mention hashtag" rel="nofollow noopener" target="_blank">#biochemistry</a> and <a href="https://mathstodon.xyz/tags/physics" class="mention hashtag" rel="nofollow noopener" target="_blank">#physics</a>, is working at Georgetown University in DC this summer, on a <a href="https://mathstodon.xyz/tags/cancer" class="mention hashtag" rel="nofollow noopener" target="_blank">#cancer</a> research internship. His work focuses on <a href="https://mathstodon.xyz/tags/cell" class="mention hashtag" rel="nofollow noopener" target="_blank">#cell</a>-type <a href="https://mathstodon.xyz/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a> in spatial <a href="https://mathstodon.xyz/tags/transcriptomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#transcriptomics</a>.I know nothing about biology, but I am assisting him with deconvolution. My MathsTodon friends, have you any guidance to offer, either in mathematics or in biology?

Albert Cardona<a href="https://mathstodon.xyz/@NadiaHalidi" class="u-url mention" rel="nofollow noopener" target="_blank">@NadiaHalidi</a> Workshop on True Image Deconvolution, Restoration, and AnalysisWhen: March 13th, 2025 – 3 days from now.2 hours long: 14:30 - 16:30 CETWhere: online, via zoom.Program: <a href="https://www.crg.eu/en/event/workshop-true-image-deconvolution-restoration-and-analysis" rel="nofollow noopener" translate="no" target="_blank">https://www.crg.eu/en/event/workshop-true-image-deconvolution-restoration-and-analysis</a>Registration: <a href="https://apps.crg.es/content/internet/events/webforms/workshop-true-image-deconvolution-restoration-and-analysis" rel="nofollow noopener" translate="no" target="_blank">https://apps.crg.es/content/internet/events/webforms/workshop-true-image-deconvolution-restoration-and-analysis</a><a href="https://mathstodon.xyz/tags/BioimageAnalysis" class="mention hashtag" rel="nofollow noopener" target="_blank">#BioimageAnalysis</a> <a href="https://mathstodon.xyz/tags/PSF" class="mention hashtag" rel="nofollow noopener" target="_blank">#PSF</a> <a href="https://mathstodon.xyz/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a> <a href="https://mathstodon.xyz/tags/ImageProcessing" class="mention hashtag" rel="nofollow noopener" target="_blank">#ImageProcessing</a> <a href="https://mathstodon.xyz/tags/microscopy" class="mention hashtag" rel="nofollow noopener" target="_blank">#microscopy</a>

TomKrajci 🇺🇦 🏳️‍🌈 🏳️‍⚧️Three-day old waxing crescent moon - high resolution stack of 180 images.(This is a continuation of my learning that started yesterday: <a href="https://universeodon.com/@KrajciTom/113758881213411285" rel="nofollow noopener" translate="no" target="_blank">https://universeodon.com/@KrajciTom/113758881213411285</a> )I am quite surprised at how much detail I could extract from the image stack, given that I was imaging through 2-1/2 air masses with a mediocre quality telephoto lens.Screenshots 2, 3, and 4 show how the user of the deconvolution software needs to carefully choose the size of the Gaussian deconvolution kernel (expressed as a radius in pixels).This image stack has such a high signal to noise ratio that if I boost contrast and brightness, earthshine is clearly visible with decent detail showing maria, highlands, craters, and ejecta rays. "Lucky imaging" techniques and software are practically magic for high-resolution imaging.<a href="https://universeodon.com/tags/NewMexico" class="mention hashtag" rel="nofollow noopener" target="_blank">#NewMexico</a> <a href="https://universeodon.com/tags/Moon" class="mention hashtag" rel="nofollow noopener" target="_blank">#Moon</a> <a href="https://universeodon.com/tags/Infrared" class="mention hashtag" rel="nofollow noopener" target="_blank">#Infrared</a> <a href="https://universeodon.com/tags/Monochrome" class="mention hashtag" rel="nofollow noopener" target="_blank">#Monochrome</a> <a href="https://universeodon.com/tags/Telephoto" class="mention hashtag" rel="nofollow noopener" target="_blank">#Telephoto</a> <a href="https://universeodon.com/tags/Astronomy" class="mention hashtag" rel="nofollow noopener" target="_blank">#Astronomy</a> <a href="https://universeodon.com/tags/Astrophotography" class="mention hashtag" rel="nofollow noopener" target="_blank">#Astrophotography</a> <a href="https://universeodon.com/tags/Photography" class="mention hashtag" rel="nofollow noopener" target="_blank">#Photography</a> <a href="https://universeodon.com/tags/BnW" class="mention hashtag" rel="nofollow noopener" target="_blank">#BnW</a> <a href="https://universeodon.com/tags/Deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#Deconvolution</a> <a href="https://universeodon.com/tags/Math" class="mention hashtag" rel="nofollow noopener" target="_blank">#Math</a> <a href="https://universeodon.com/tags/ImageProcessing" class="mention hashtag" rel="nofollow noopener" target="_blank">#ImageProcessing</a>

TomKrajci 🇺🇦 🏳️‍🌈 🏳️‍⚧️New Year, new image processing for sharper moon images.Two-day old crescent on the evening of 1 January.This is a first attempt at stacking multiple images and then using deconvolution to enhance the finer details.I only took a small number of images, but results are promising.2nd screen grab shows an analysis of my batch of 31 images. The green line is a plot sorted by image quality and shows that about 20% of my images were of high sharpness...half the images were of medium-low sharpness, and the remaining 30% were pretty bad. (Playing those images in sequence from best to worst was eye opening.)In this case I discarded the worst 30% and stacked the remaining images. Stacking software: <a href="https://www.autostakkert.com/" rel="nofollow noopener" translate="no" target="_blank">https://www.autostakkert.com/</a>Then I used deconvolution: <a href="https://greatattractor.github.io/imppg/" rel="nofollow noopener" translate="no" target="_blank">https://greatattractor.github.io/imppg/</a><a href="https://en.wikipedia.org/wiki/Richardson%E2%80%93Lucy_deconvolution" rel="nofollow noopener" translate="no" target="_blank">https://en.wikipedia.org/wiki/Richardson%E2%80%93Lucy_deconvolution</a>Next clear night...take many, many images!<a href="https://universeodon.com/tags/NewMexico" class="mention hashtag" rel="nofollow noopener" target="_blank">#NewMexico</a> <a href="https://universeodon.com/tags/Moon" class="mention hashtag" rel="nofollow noopener" target="_blank">#Moon</a> <a href="https://universeodon.com/tags/Infrared" class="mention hashtag" rel="nofollow noopener" target="_blank">#Infrared</a> <a href="https://universeodon.com/tags/Monochrome" class="mention hashtag" rel="nofollow noopener" target="_blank">#Monochrome</a> <a href="https://universeodon.com/tags/Telephoto" class="mention hashtag" rel="nofollow noopener" target="_blank">#Telephoto</a> <a href="https://universeodon.com/tags/Astronomy" class="mention hashtag" rel="nofollow noopener" target="_blank">#Astronomy</a> <a href="https://universeodon.com/tags/Astrophotography" class="mention hashtag" rel="nofollow noopener" target="_blank">#Astrophotography</a> <a href="https://universeodon.com/tags/Photography" class="mention hashtag" rel="nofollow noopener" target="_blank">#Photography</a> <a href="https://universeodon.com/tags/BnW" class="mention hashtag" rel="nofollow noopener" target="_blank">#BnW</a> <a href="https://universeodon.com/tags/NewYear" class="mention hashtag" rel="nofollow noopener" target="_blank">#NewYear</a> <a href="https://universeodon.com/tags/Deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#Deconvolution</a> <a href="https://universeodon.com/tags/Math" class="mention hashtag" rel="nofollow noopener" target="_blank">#Math</a> <a href="https://universeodon.com/tags/ImageProcessing" class="mention hashtag" rel="nofollow noopener" target="_blank">#ImageProcessing</a>

CellBioNewsImproving resolution and reducing noise in <a href="https://scientificnetwork.de/tags/fluorescence" class="mention hashtag" rel="nofollow noopener" target="_blank">#fluorescence</a> <a href="https://scientificnetwork.de/tags/microscopy" class="mention hashtag" rel="nofollow noopener" target="_blank">#microscopy</a> with ensured fidelity.<a href="https://scientificnetwork.de/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a> <a href="https://scientificnetwork.de/tags/multi_resolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#multi_resolution</a><a href="https://phys.org/news/2024-08-resolution-noise-fluorescence-microscopy-fidelity.html" rel="nofollow noopener" translate="no" target="_blank">https://phys.org/news/2024-08-resolution-noise-fluorescence-microscopy-fidelity.html</a>

Jack KammNew preprint: Fine-scale cellular deconvolution via generalized maximum entropy on canonical correlation features <a href="https://mastodon.social/tags/singlecell" class="mention hashtag" rel="nofollow noopener" target="_blank">#singlecell</a> <a href="https://mastodon.social/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a><a href="https://www.biorxiv.org/content/10.1101/2024.06.07.598010v1" rel="nofollow noopener" translate="no" target="_blank">https://www.biorxiv.org/content/10.1101/2024.06.07.598010v1</a>

Moritz NegwerThis 3D image stack deconvolution tool looks super useful for <a href="https://mstdn.science/tags/bioimageanalysis" class="mention hashtag" rel="nofollow noopener" target="_blank">#bioimageanalysis</a> Deconwolf enables high-performance deconvolution of widefield fluorescence microscopy images Wernersson et al., Nature Methods 2024 <a href="https://doi.org/10.1038/s41592-024-02294-7" rel="nofollow noopener" translate="no" target="_blank">https://doi.org/10.1038/s41592-024-02294-7</a>Github: <a href="https://github.com/elgw/deconwolf/" rel="nofollow noopener" translate="no" target="_blank">https://github.com/elgw/deconwolf/</a> Program: <a href="https://deconwolf.fht.org/" rel="nofollow noopener" translate="no" target="_blank">https://deconwolf.fht.org/</a><a href="https://mstdn.science/tags/microscopy" class="mention hashtag" rel="nofollow noopener" target="_blank">#microscopy</a> <a href="https://mstdn.science/tags/ImageAnalysis" class="mention hashtag" rel="nofollow noopener" target="_blank">#ImageAnalysis</a> <a href="https://mstdn.science/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a>

SVI HuygensSimply combine pixel (co-occurence and correlation) or object-based <a href="https://mstdn.science/tags/colocalization" class="mention hashtag" rel="nofollow noopener" target="_blank">#colocalization</a> analysis with corrections (like <a href="https://mstdn.science/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a>, crosstalk correction and chromatic aberration) in Huygens Workflow Processor, and increase the reliability of your measurements. Try Huygens at svi.nl

Albert Cardona"Ring Deconvolution Microscopy: An Exact Solution for Spatially-Varying Aberration Correction" by Amit Kohli et al. 2023 <a href="https://arxiv.org/abs/2206.08928" rel="nofollow noopener" target="_blank">https://arxiv.org/abs/2206.08928</a>Claims to solve the spatially-varying problem of deconvolution that makes it so computationally expensive, and with a single calibration image per instrument. Eager to give it a try soon.<a href="https://mathstodon.xyz/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a> <a href="https://mathstodon.xyz/tags/LSM" class="mention hashtag" rel="nofollow noopener" target="_blank">#LSM</a> <a href="https://mathstodon.xyz/tags/imaging" class="mention hashtag" rel="nofollow noopener" target="_blank">#imaging</a> <a href="https://mathstodon.xyz/tags/microscopy" class="mention hashtag" rel="nofollow noopener" target="_blank">#microscopy</a>

Daniel FischerRichardson-Lucy <a href="https://scicomm.xyz/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a> with a spatially Variant point-spread function of <a href="https://scicomm.xyz/tags/Chandra" class="mention hashtag" rel="nofollow noopener" target="_blank">#Chandra</a> - Supernova Remnant <a href="https://scicomm.xyz/tags/CassiopeiaA" class="mention hashtag" rel="nofollow noopener" target="_blank">#CassiopeiaA</a> as an Example: <a href="https://arxiv.org/abs/2306.13355" rel="nofollow noopener" target="_blank">https://arxiv.org/abs/2306.13355</a> -> Image Reconstruction Technique to Enhance the Clarity of High Spatial Resolution Space X-ray Images - Revealing fine structures in Cassiopeia A Supernova Remnant: <a href="https://english.rikkyo.ac.jp/news/2023/dn4ddm0000005dp0.html" rel="nofollow noopener" target="_blank">https://english.rikkyo.ac.jp/news/2023/dn4ddm0000005dp0.html</a>

Dave TabbHow mature are the identification algorithms for top-down <a href="https://mastodon.africa/tags/proteomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#proteomics</a>? If we use two different algorithms on the same data, do we see the same proteoforms? I was recently lucky enough to invest two whole years in top-down <a href="https://mastodon.africa/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#bioinformatics</a>, courtesy of Julia Chamot-Rooke. Kyowon Jeong invested some serious time to teach me about <a href="https://mastodon.africa/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a>, too! We feature new data from Mowei Zhou for <a href="https://mastodon.africa/tags/phosphorylation" class="mention hashtag" rel="nofollow noopener" target="_blank">#phosphorylation</a> proteomics. <a href="https://doi.org/10.1021/acs.jproteome.2c00673" rel="nofollow noopener" target="_blank">https://doi.org/10.1021/acs.jproteome.2c00673</a>

Digital Science Center (DiSC)Don't miss today's <a href="https://mstdn.science/tags/DiSCourseSeminar" class="mention hashtag" rel="nofollow noopener" target="_blank">#DiSCourseSeminar</a> with <a href="https://genomic.social/@Francesca_Finotello" class="u-url mention" rel="nofollow noopener" target="_blank">@Francesca_Finotello</a> at 12:00 (CEST) at DiSC, Innrain 15, 6020 Innsbruck or on Big Blue Button: <a href="https://webconference.uibk.ac.at/b/car-aab-cxf-o81" rel="nofollow noopener" target="_blank">https://webconference.uibk.ac.at/b/car-aab-cxf-o81</a>Topic: Charting Tissue Complexity Through Transcriptomics <a href="https://mstdn.science/tags/Deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#Deconvolution</a><a href="https://mstdn.science/tags/multiomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#multiomics</a> <a href="https://mstdn.science/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#bioinformatics</a>

Digital Science Center (DiSC)Join us on Friday, 12:00 (CEST) for another <a href="https://mstdn.science/tags/DiSCourseSeminar" class="mention hashtag" rel="nofollow noopener" target="_blank">#DiSCourseSeminar</a>.Topic: Charting Tissue Complexity Through Transcriptomics <a href="https://mstdn.science/tags/Deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#Deconvolution</a>Speaker: <a href="https://genomic.social/@Francesca_Finotello" class="u-url mention" rel="nofollow noopener" target="_blank">@Francesca_Finotello</a> (DiSC & Molecular Biology).Location: Onsite at DiSC or online on Big Blue Button.More: <a href="https://www.uibk.ac.at/disc/events/" rel="nofollow noopener" target="_blank">https://www.uibk.ac.at/disc/events/</a>

Digital Science Center (DiSC)Our next <a href="https://mstdn.science/tags/DiSCourseSeminar" class="mention hashtag" rel="nofollow noopener" target="_blank">#DiSCourseSeminar</a> with <a href="https://genomic.social/@Francesca_Finotello" class="u-url mention" rel="nofollow noopener" target="_blank">@Francesca_Finotello</a>, Dept. of Molecular Biology & DiSC <a href="https://wisskomm.social/@uniinnsbruck" class="u-url mention" rel="nofollow noopener" target="_blank">@uniinnsbruck</a>, is scheduled for 5 May, 12:00 (CEST). Her talk is about Charting Tissue Complexity Through Transcriptomics <a href="https://mstdn.science/tags/Deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#Deconvolution</a>!Read more here: <a href="https://www.uibk.ac.at/disc/event-documents/discourse/discourse_francesca-finotello_05052023.pdf" rel="nofollow noopener" target="_blank">https://www.uibk.ac.at/disc/event-documents/discourse/discourse_francesca-finotello_05052023.pdf</a>

Daniel FischerGalaxy image <a href="https://scicomm.xyz/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a> for weak <a href="https://scicomm.xyz/tags/GravitationaLensing" class="mention hashtag" rel="nofollow noopener" target="_blank">#GravitationaLensing</a> with unrolled plug-and-play ADMM: <a href="https://academic.oup.com/mnrasl/article/522/1/L31/7075894" rel="nofollow noopener" target="_blank">https://academic.oup.com/mnrasl/article/522/1/L31/7075894</a> -> <a href="https://scicomm.xyz/tags/AI" class="mention hashtag" rel="nofollow noopener" target="_blank">#AI</a> algorithm unblurs the cosmos; tool produces faster, more realistic images than current methods: <a href="https://news.northwestern.edu/stories/2023/03/ai-algorithm-unblurs-the-cosmos/" rel="nofollow noopener" target="_blank">https://news.northwestern.edu/stories/2023/03/ai-algorithm-unblurs-the-cosmos/</a> and <a href="https://news.northwestern.edu/stories/2023/03/ai-algorithm-unblurs-the-cosmos/?fj=1" rel="nofollow noopener" target="_blank">https://news.northwestern.edu/stories/2023/03/ai-algorithm-unblurs-the-cosmos/?fj=1</a>

j_bertolotti<a href="https://mathstodon.xyz/tags/PhysicsFactlet" class="mention hashtag" rel="nofollow noopener" target="_blank">#PhysicsFactlet</a> If you know the response function of your instrument, you can deconvolve it from your measurement to obtain a much sharper signal. But deconvolution is a dangerous procedure, as small mistakes in the kernel can result in heavy artefacts. <a href="https://mathstodon.xyz/tags/Visualization" class="mention hashtag" rel="nofollow noopener" target="_blank">#Visualization</a> <a href="https://mathstodon.xyz/tags/Imaging" class="mention hashtag" rel="nofollow noopener" target="_blank">#Imaging</a> <a href="https://mathstodon.xyz/tags/PointSpreadFunction" class="mention hashtag" rel="nofollow noopener" target="_blank">#PointSpreadFunction</a> <a href="https://mathstodon.xyz/tags/Deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#Deconvolution</a> <a href="https://mathstodon.xyz/tags/Physics" class="mention hashtag" rel="nofollow noopener" target="_blank">#Physics</a>

David Kent, bird of the seai guess i'll do an <a href="https://mathstodon.xyz/tags/introduction" class="mention hashtag" rel="nofollow noopener" target="_blank">#introduction</a>. i'm a <a href="https://mathstodon.xyz/tags/statistics" class="mention hashtag" rel="nofollow noopener" target="_blank">#statistics</a> phd candidate at <a href="https://mathstodon.xyz/tags/cornell" class="mention hashtag" rel="nofollow noopener" target="_blank">#cornell</a>. i work on non-parametric <a href="https://mathstodon.xyz/tags/deconvolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#deconvolution</a> (aspirational hashtag) theory and some <a href="https://mathstodon.xyz/tags/FunctionalData" class="mention hashtag" rel="nofollow noopener" target="_blank">#FunctionalData</a> non-parametric regression stuff too (currently with <a href="https://mathstodon.xyz/tags/astronomy" class="mention hashtag" rel="nofollow noopener" target="_blank">#astronomy</a> applications; spectroscopy, photometric redshift estimation, etc).i'm learning <a href="https://mathstodon.xyz/tags/persian" class="mention hashtag" rel="nofollow noopener" target="_blank">#persian</a> (سلام! خوبی؟) and <a href="https://mathstodon.xyz/tags/running" class="mention hashtag" rel="nofollow noopener" target="_blank">#running</a> when i'm not doing stats or <a href="https://mathstodon.xyz/tags/lying" class="mention hashtag" rel="nofollow noopener" target="_blank">#lying</a> <a href="https://mathstodon.xyz/tags/prone" class="mention hashtag" rel="nofollow noopener" target="_blank">#prone</a> on the <a href="https://mathstodon.xyz/tags/floor" class="mention hashtag" rel="nofollow noopener" target="_blank">#floor</a> in <a href="https://mathstodon.xyz/tags/despair" class="mention hashtag" rel="nofollow noopener" target="_blank">#despair</a>

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