New editing modes for the TrackMate segmentation editor
In the v8.1 we introduce editing modes for the segmentation editor of TrackMate. These modes leverage the capabilities of Labkit to facilitate the edition of segmentation masks.
In the v8.1 we introduce editing modes for the segmentation editor of TrackMate. These modes leverage the capabilities of Labkit to facilitate the edition of segmentation masks.
December 10, 2025 at 1:13 PM
New editing modes for the TrackMate segmentation editor
In the v8.1 we introduce editing modes for the segmentation editor of TrackMate. These modes leverage the capabilities of Labkit to facilitate the edition of segmentation masks.
In the v8.1 we introduce editing modes for the segmentation editor of TrackMate. These modes leverage the capabilities of Labkit to facilitate the edition of segmentation masks.
The Segmentation Editor
TrackMate now includes a 2D segmentation editor based on LabKit, allowing users to create and manually edit object shapes in 2D. With the track edition capabilities of TrackMate, it makes it possible to generate 2D tracking ground truth from scratch in an efficient manner.
TrackMate now includes a 2D segmentation editor based on LabKit, allowing users to create and manually edit object shapes in 2D. With the track edition capabilities of TrackMate, it makes it possible to generate 2D tracking ground truth from scratch in an efficient manner.
November 20, 2025 at 11:42 AM
The Segmentation Editor
TrackMate now includes a 2D segmentation editor based on LabKit, allowing users to create and manually edit object shapes in 2D. With the track edition capabilities of TrackMate, it makes it possible to generate 2D tracking ground truth from scratch in an efficient manner.
TrackMate now includes a 2D segmentation editor based on LabKit, allowing users to create and manually edit object shapes in 2D. With the track edition capabilities of TrackMate, it makes it possible to generate 2D tracking ground truth from scratch in an efficient manner.
【生物影像分析入門】AI機器學習與深度學習介紹｜Fiji影像處理全攻略
在現代生物影像分析中，AI技術尤以機器學習和深度學習為重，推動科研和臨床診斷的發展。羅安琦副技師的課程深入介紹了AI的基礎概念、模型原理及生物影像分析中的實用工具，包括三款熱門影像分割工具：Labkit、StarDist和Cellpose。本文整理精華，幫助讀者理解AI在生物影像分析的應用，並掌握工具操作，提升研究效率與準確度。
在現代生物影像分析中，AI技術尤以機器學習和深度學習為重，推動科研和臨床診斷的發展。羅安琦副技師的課程深入介紹了AI的基礎概念、模型原理及生物影像分析中的實用工具，包括三款熱門影像分割工具：Labkit、StarDist和Cellpose。本文整理精華，幫助讀者理解AI在生物影像分析的應用，並掌握工具操作，提升研究效率與準確度。
【生物影像分析入門】AI機器學習與深度學習介紹｜Fiji影像處理全攻略
在現代生物影像分析中，AI技術尤以機器學習和深度學習為重，推動科研和臨床診斷的發展。羅安琦副技師的課程深入介紹了AI的基礎概念、模型原理及生物影像分析中的實用工具，包括三款熱門影像分割工具：Labkit、StarDist和Cellpose。本文整理精華，幫助讀者理解AI在生物影像分析的應用，並掌握工具操作，提升研究效率與準確度。
www.isuperman.tw
July 4, 2025 at 9:51 PM
【生物影像分析入門】AI機器學習與深度學習介紹｜Fiji影像處理全攻略
在現代生物影像分析中，AI技術尤以機器學習和深度學習為重，推動科研和臨床診斷的發展。羅安琦副技師的課程深入介紹了AI的基礎概念、模型原理及生物影像分析中的實用工具，包括三款熱門影像分割工具：Labkit、StarDist和Cellpose。本文整理精華，幫助讀者理解AI在生物影像分析的應用，並掌握工具操作，提升研究效率與準確度。
在現代生物影像分析中，AI技術尤以機器學習和深度學習為重，推動科研和臨床診斷的發展。羅安琦副技師的課程深入介紹了AI的基礎概念、模型原理及生物影像分析中的實用工具，包括三款熱門影像分割工具：Labkit、StarDist和Cellpose。本文整理精華，幫助讀者理解AI在生物影像分析的應用，並掌握工具操作，提升研究效率與準確度。
Well then. I think I might have found the MPT1343/MPT1327 Checkbits calculation function - used to figure out if the ESN on an MPT trunked radio has been illicitly modified.
The Motorola radio Labkit software (ESN Tool) that's been floating around for a while […]
[Original post on digipres.club]
The Motorola radio Labkit software (ESN Tool) that's been floating around for a while […]
[Original post on digipres.club]
March 28, 2025 at 9:36 PM
Well then. I think I might have found the MPT1343/MPT1327 Checkbits calculation function - used to figure out if the ESN on an MPT trunked radio has been illicitly modified.
The Motorola radio Labkit software (ESN Tool) that's been floating around for a while […]
[Original post on digipres.club]
The Motorola radio Labkit software (ESN Tool) that's been floating around for a while […]
[Original post on digipres.club]
Grateful for the invitation to speak at the Science in the Pub outreach event and share recent work on adapting machine-learning based toolkit #LABKIT for functional analysis of #malaria invasion machinery. Great platform to discuss such important topic with passionate audience! #AI4Life #EndMalaria
March 28, 2025 at 10:31 AM
Grateful for the invitation to speak at the Science in the Pub outreach event and share recent work on adapting machine-learning based toolkit #LABKIT for functional analysis of #malaria invasion machinery. Great platform to discuss such important topic with passionate audience! #AI4Life #EndMalaria
The image segmentation tools & training of ML/DL models used to generate data in the talk were prepared thanks to manual and training notes by Cameron Nowel, all available at #zerocostAI here: 👇👇
sites.google.com/monash.edu/fij…#AIinInfectiousDiseasese#OpenAIA#APMC131#LABKITI#Ilastiki#CellPosese
sites.google.com/monash.edu/fij…#AIinInfectiousDiseasese#OpenAIA#APMC131#LABKITI#Ilastiki#CellPosese
February 12, 2025 at 12:15 PM
The image segmentation tools & training of ML/DL models used to generate data in the talk were prepared thanks to manual and training notes by Cameron Nowel, all available at #zerocostAI here: 👇👇
sites.google.com/monash.edu/fij…#AIinInfectiousDiseasese#OpenAIA#APMC131#LABKITI#Ilastiki#CellPosese
sites.google.com/monash.edu/fij…#AIinInfectiousDiseasese#OpenAIA#APMC131#LABKITI#Ilastiki#CellPosese
Labkit in Fiji
February 9, 2025 at 11:46 AM
Labkit in Fiji
Special thanks to our imaging facilities in Adelaide, collaborators interstate and abroad and the developers and advisors of open source AI tools, and team behind ilastik, LABkit and CellPose whose contributions are driving innovation in #Bioimageanalysis #EndMalaria #NCRISimpact #AIinScience
February 4, 2025 at 10:42 PM
Special thanks to our imaging facilities in Adelaide, collaborators interstate and abroad and the developers and advisors of open source AI tools, and team behind ilastik, LABkit and CellPose whose contributions are driving innovation in #Bioimageanalysis #EndMalaria #NCRISimpact #AIinScience
26/ 3) Don't use very dense labeling, like thick lines or an entire nucleus. This is bad for two reasons. One, you're giving labkit a LOT of pixels that all look very similar (since they're next to each other). Much better to give examples that are diverse, and from different regions of the image)
December 15, 2024 at 4:13 PM
26/ 3) Don't use very dense labeling, like thick lines or an entire nucleus. This is bad for two reasons. One, you're giving labkit a LOT of pixels that all look very similar (since they're next to each other). Much better to give examples that are diverse, and from different regions of the image)
23/ A couple of practical tips: 1) You need less data than you think you do! Here is a segmentation. Not great, but recognizably classifying the image into our four classes. To do this, I have labkit *one* pixel of ground truth per class (a total of 4 pixels of ground truth for the entire image!)
December 15, 2024 at 4:13 PM
23/ A couple of practical tips: 1) You need less data than you think you do! Here is a segmentation. Not great, but recognizably classifying the image into our four classes. To do this, I have labkit *one* pixel of ground truth per class (a total of 4 pixels of ground truth for the entire image!)
22/ Once we've finished giving labkit some pixels to learn from of each class, we can train our classifier by clicking "labkit pixel classification" and then pressing the play button. Labkit will train a classifier and apply it to your image!
December 15, 2024 at 4:13 PM
22/ Once we've finished giving labkit some pixels to learn from of each class, we can train our classifier by clicking "labkit pixel classification" and then pressing the play button. Labkit will train a classifier and apply it to your image!
21/ Now we need to label some pixels of known classes to train on. Using the pen tool at the top, we give labkit some ground truth labels by scribbling on the image, for example.
December 15, 2024 at 4:13 PM
21/ Now we need to label some pixels of known classes to train on. Using the pen tool at the top, we give labkit some ground truth labels by scribbling on the image, for example.
19/ Let's use labkit to segment this image into 4 classes: nuclei, mitochondria, puncta and background. We can open the image in labkit by selecting Plugins->Labkit->Open Current Image With Labkit
December 15, 2024 at 4:13 PM
19/ Let's use labkit to segment this image into 4 classes: nuclei, mitochondria, puncta and background. We can open the image in labkit by selecting Plugins->Labkit->Open Current Image With Labkit
12/ For example, a pixel near a bright edge might have a strong response to an edge detection filter, a pixel in a relatively uniform region will have a particular response to a median filter and so on and so forth. Details here: https://imagej.net/plugins/labkit/pixel-classification-algorithm
December 15, 2024 at 4:13 PM
12/ For example, a pixel near a bright edge might have a strong response to an edge detection filter, a pixel in a relatively uniform region will have a particular response to a median filter and so on and so forth. Details here: https://imagej.net/plugins/labkit/pixel-classification-algorithm
2/ Specifically, let's semantically segment this hela-cells example image from Fiji using Labkit. In semantic segmentation, we segment our image by dividing pixels into classes (in the case of this image, mitochondria, nuclei, puncta and background)
December 15, 2024 at 4:13 PM
2/ Specifically, let's semantically segment this hela-cells example image from Fiji using Labkit. In semantic segmentation, we segment our image by dividing pixels into classes (in the case of this image, mitochondria, nuclei, puncta and background)
The idea: What if we could take these big foundation models (ie SAM, SAM2), use them to generate embeddings of images and then train a random forest classifier not on the pixels (think labkit), but instead on these embeddings from the big foundation models, giving small amounts of ground truth?
November 21, 2024 at 3:16 PM
The idea: What if we could take these big foundation models (ie SAM, SAM2), use them to generate embeddings of images and then train a random forest classifier not on the pixels (think labkit), but instead on these embeddings from the big foundation models, giving small amounts of ground truth?
Today I would like to highlight Labkit from @florianjug.bsky.social lab, one of my favorite pixel classifier. Fiji plugin, very easy to use, GPU accelerated, works on large datasets and has batch processing. imagej.net/plugins/labk...
www.frontiersin.org/journals/com...
#BioimageTooloftheDay
www.frontiersin.org/journals/com...
#BioimageTooloftheDay
Labkit - Intuitive Pixel Classification in Fiji
The ImageJ wiki is a community-edited knowledge base on topics relating to ImageJ, a public domain program for processing and analyzing scientific images, and its ecosystem of derivatives and variants...
imagej.net
November 13, 2024 at 3:36 PM
Today I would like to highlight Labkit from @florianjug.bsky.social lab, one of my favorite pixel classifier. Fiji plugin, very easy to use, GPU accelerated, works on large datasets and has batch processing. imagej.net/plugins/labk...
www.frontiersin.org/journals/com...
#BioimageTooloftheDay
www.frontiersin.org/journals/com...
#BioimageTooloftheDay
What if CellPose with LabKit editing capabilities?
November 6, 2024 at 8:25 PM
What if CellPose with LabKit editing capabilities?
Happy to see my boys Marcel and Niklas get recognition for their Figma Labkit! www.figma.com/blog/three-c...
November 8, 2023 at 9:05 PM
Happy to see my boys Marcel and Niklas get recognition for their Figma Labkit! www.figma.com/blog/three-c...
Thursday already. 😱
Today we kicked the day off with a double-feature lecture by Damian Dalle Nogare and Wei Ouyang.
Topic: how to label data for training. We heard about Labkit, napari, imjoy, Kailua, and more!
Labeling is hard and annoying, but tools are getting better! 👍
Today we kicked the day off with a double-feature lecture by Damian Dalle Nogare and Wei Ouyang.
Topic: how to label data for training. We heard about Labkit, napari, imjoy, Kailua, and more!
Labeling is hard and annoying, but tools are getting better! 👍
October 19, 2023 at 9:11 AM
Thursday already. 😱
Today we kicked the day off with a double-feature lecture by Damian Dalle Nogare and Wei Ouyang.
Topic: how to label data for training. We heard about Labkit, napari, imjoy, Kailua, and more!
Labeling is hard and annoying, but tools are getting better! 👍
Today we kicked the day off with a double-feature lecture by Damian Dalle Nogare and Wei Ouyang.
Topic: how to label data for training. We heard about Labkit, napari, imjoy, Kailua, and more!
Labeling is hard and annoying, but tools are getting better! 👍