Lmst

My son, Ronan, who is double-majoring in #biochemistry and #physics, is working at Georgetown University in DC this summer, on a #cancer research internship. His work focuses on #cell-type #deconvolution in spatial #transcriptomics.

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?

Sometimes, #deconvolution is used by #CS folks to mitigate noise and distortion in an image, provided the characteristic function of the interference source can be measured (or modelled).

I wonder if #radar #EE folks have tried deconvolving the reflected signal with a measured (or modelled) topography of the operating area, so as to cure the ills caused by the ground clutter.

#DSP #DIP

Ok, this is amazing.

https://inv.nadeko.net/watch?v=xDLxFGXuPEc

YT - Captain Disillusion - CD / Blur

#Blur #DeBlur #Convolution #Gaussian #DeConvolution #Fourier

@NadiaHalidi

Workshop on True Image Deconvolution, Restoration, and Analysis

When: March 13th, 2025 – 3 days from now.

2 hours long: 14:30 - 16:30 CET

Where: online, via zoom.

Program: https://www.crg.eu/en/event/workshop-true-image-deconvolution-restoration-and-analysis

Registration: https://apps.crg.es/content/internet/events/webforms/workshop-true-image-deconvolution-restoration-and-analysis

#BioimageAnalysis #PSF #deconvolution #ImageProcessing #microscopy

Three-day old waxing crescent moon - high resolution stack of 180 images.

(This is a continuation of my learning that started yesterday: https://universeodon.com/@KrajciTom/113758881213411285 )

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.

#NewMexico #Moon #Infrared #Monochrome #Telephoto #Astronomy #Astrophotography #Photography #BnW #Deconvolution #Math #ImageProcessing

Three-day old waxing crescent moon.

Taken in near infrared, so it's monochrome/black & white.

The sky background is jet black.

The low sun angle all over this thin crescent makes even the smallest terrain relief stand out and/or cast shadows.

This is a stack of 180 images, which helps show fine detail.

An example with the sigma (pixel radius value) grossly too large. The processed image looks very wrong.

Pixel radius value too large, but getting closer to a good value.

Pixel radius slightly too small.

I eventually settled on a value of 1.35 for the first image you see in this post.

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: https://www.autostakkert.com/

Then I used deconvolution: https://greatattractor.github.io/imppg/

https://en.wikipedia.org/wiki/Richardson%E2%80%93Lucy_deconvolution

Next clear night...take many, many images!

#NewMexico #Moon #Infrared #Monochrome #Telephoto #Astronomy #Astrophotography #Photography #BnW #NewYear #Deconvolution #Math #ImageProcessing

Two-day old crescent moon. Monochrome, taken in near infrared. Sky background is jet black.

This 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.)

They light gray line is a chronological plot of image sharpness. My first image was pretty sharp, then image quality quickly degraded...slowly ramped up until the last 6 or 7 images, which were the sharpest of the batch.

Improving resolution and reducing noise in #fluorescence #microscopy with ensured fidelity.

#deconvolution #multi_resolution

https://phys.org/news/2024-08-resolution-noise-fluorescence-microscopy-fidelity.html

'Linear Regression With Unmatched Data: A Deconvolution Perspective', by Mona Azadkia, Fadoua Balabdaoui.

http://jmlr.org/papers/v25/22-0930.html

#deconvolution #identifiability #estimator

Ich berichtete hier ja schonmal von einem Algorithmus zur Bild-#Schärfung (#Deconvolution), den ich entwickelt und implemeniert habe. Hier nich ein paar weitere Beispiele des Könnens. Leider habe ich noch niemanden gefunden, der sich dafür interessiert.

Noch ein neues Beispielbild für meinen Bildschärfungs-Algorithmus. ( #Schärfung #Deconvolution #Algorithmus )

Noch ein paar mehr Vorher-Nachher-Bilder eines Bild- #Schärfung -s-#Algorithmus (#Deconvolution), den ich entwickelt und programmiert habe. Vielleicht hat eine Firma etwas Interesse daran?

Ein paar Vorher-Nachher-Bilder eines Bild- #Schärfung -s-#Algorithmus (#Deconvolution), den ich entwickelt und programmiert habe. Vielleicht hat eine Firma etwas Interesse daran?

New preprint: Fine-scale cellular deconvolution via generalized maximum entropy on canonical correlation features #singlecell #deconvolution

https://www.biorxiv.org/content/10.1101/2024.06.07.598010v1

This 3D image stack deconvolution tool looks super useful for #bioimageanalysis

Deconwolf enables high-performance deconvolution of widefield fluorescence microscopy images
Wernersson et al., Nature Methods 2024
https://doi.org/10.1038/s41592-024-02294-7

Github: https://github.com/elgw/deconwolf/
Program: https://deconwolf.fht.org/

#microscopy #ImageAnalysis #deconvolution

Vor einiger Zeit habe ich mal einen Bildschärfungs- #Algorithmus ( #Schärfung
#Deconvolution ) entwickelt und implementiert. Hier ein jüngstes Beispiel des Könnens der Routine (sofern die PSF möglichst genau bekannt ist).
Leider interessiert sich kaum jemand für diesen Algorithmus 😟

⚡ Application deadline extension for #EMBLSuperResolution incoming! ⚡

Do you want to be able to do the following:
🔹 Design experiments using STED microscopy
🔹 Prepare high-quality microscopy samples
🔹 Acquire state-of-the-art nanoscopy images

Then use this chance to apply by 6 May! ➡️ https://s.embl.org/mic24-03

#sted #nanoscopy #livecellimaging #superresolutionmicroscopy #deconvolution #tissueimaging #multicoloursted #lifetimeimaging #phasor #nanoscaleimaging #expansionmicroscopy

📣 You only have until 15 April to apply for #EMBLSuperResolution! 🔬

Learn from EMBL and Leica Microsystems experts during this comprehensive course which will cover all aspects of classical and time-resolved STED nanoscopy for biological applications from living cells to large tissues. 🔍

💻 https://s.embl.org/mic24-03
📥 Apply by 15 April
🗓️ 8 – 13 July
🗺️ EMBL Heidelberg

#sted #nanoscopy #livecellimaging #superresolutionmicroscopy #deconvolution

Simply combine pixel (co-occurence and correlation) or object-based #colocalization analysis with corrections (like #deconvolution, crosstalk correction and chromatic aberration) in Huygens Workflow Processor, and increase the reliability of your measurements. Try Huygens at svi.nl

"Ring Deconvolution Microscopy: An Exact Solution for Spatially-Varying Aberration Correction" by Amit Kohli et al. 2023 https://arxiv.org/abs/2206.08928

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.

#deconvolution #LSM #imaging #microscopy