#SpatialTranscriptomics #CellSegmentation
FastReseg
github.com/Nanostring-B...
Using transcript scoring +"spatial doublet" test to rectify segmentation errors🥸
vs transcript-dominant approaches: Baysor Proseg
#SciReports 2025
www.nature.com/articles/s41...
FastReseg
github.com/Nanostring-B...
Using transcript scoring +"spatial doublet" test to rectify segmentation errors🥸
vs transcript-dominant approaches: Baysor Proseg
#SciReports 2025
www.nature.com/articles/s41...
March 22, 2026 at 1:02 PM
#SpatialTranscriptomics #CellSegmentation
FastReseg
github.com/Nanostring-B...
Using transcript scoring +"spatial doublet" test to rectify segmentation errors🥸
vs transcript-dominant approaches: Baysor Proseg
#SciReports 2025
www.nature.com/articles/s41...
FastReseg
github.com/Nanostring-B...
Using transcript scoring +"spatial doublet" test to rectify segmentation errors🥸
vs transcript-dominant approaches: Baysor Proseg
#SciReports 2025
www.nature.com/articles/s41...
Check our yet another "Protocol for automated analysis of biological images using #Python code" sciencedirect.com/science/arti...
-Steps for the analysis of confocal images through Python
-Guidance on the usage of machine learning for #cellsegmentation
-Troubleshooting of common issues
-Steps for the analysis of confocal images through Python
-Guidance on the usage of machine learning for #cellsegmentation
-Troubleshooting of common issues
February 25, 2026 at 5:27 PM
Check our yet another "Protocol for automated analysis of biological images using #Python code" sciencedirect.com/science/arti...
-Steps for the analysis of confocal images through Python
-Guidance on the usage of machine learning for #cellsegmentation
-Troubleshooting of common issues
-Steps for the analysis of confocal images through Python
-Guidance on the usage of machine learning for #cellsegmentation
-Troubleshooting of common issues
Day 1 of #AGBT25, ft. exciting @10xgenomics.bsky.social announcements!
Later this year, #Flex coming out with 96 barcodes then eventually scaling up to 384, #Xenium #protein capabilities, and #VisiumHD #cellsegmentation.... #DukeMGC can't decide which we're most excited about! 🧬🧠💻
Later this year, #Flex coming out with 96 barcodes then eventually scaling up to 384, #Xenium #protein capabilities, and #VisiumHD #cellsegmentation.... #DukeMGC can't decide which we're most excited about! 🧬🧠💻
February 24, 2025 at 1:35 PM
Day 1 of #AGBT25, ft. exciting @10xgenomics.bsky.social announcements!
Later this year, #Flex coming out with 96 barcodes then eventually scaling up to 384, #Xenium #protein capabilities, and #VisiumHD #cellsegmentation.... #DukeMGC can't decide which we're most excited about! 🧬🧠💻
Later this year, #Flex coming out with 96 barcodes then eventually scaling up to 384, #Xenium #protein capabilities, and #VisiumHD #cellsegmentation.... #DukeMGC can't decide which we're most excited about! 🧬🧠💻
STCellbin
Use Nuclei+Cell Membrane/Wall stains to improve #CellSegmentation & single-cell-resolved #SpatialTranscriptomics
Tailored for #StereoSeq, but likely implementable for other ST methods
#GigaByteJournal 2024
gigabytejournal.com/articles/110
Use Nuclei+Cell Membrane/Wall stains to improve #CellSegmentation & single-cell-resolved #SpatialTranscriptomics
Tailored for #StereoSeq, but likely implementable for other ST methods
#GigaByteJournal 2024
gigabytejournal.com/articles/110
March 26, 2024 at 11:53 AM
STCellbin
Use Nuclei+Cell Membrane/Wall stains to improve #CellSegmentation & single-cell-resolved #SpatialTranscriptomics
Tailored for #StereoSeq, but likely implementable for other ST methods
#GigaByteJournal 2024
gigabytejournal.com/articles/110
Use Nuclei+Cell Membrane/Wall stains to improve #CellSegmentation & single-cell-resolved #SpatialTranscriptomics
Tailored for #StereoSeq, but likely implementable for other ST methods
#GigaByteJournal 2024
gigabytejournal.com/articles/110
Want to find out more? Take a look at our latest publication here: doi.org/10.1002/jemt...
This was a really fun one to write and revealed some exciting results! 🔬(3/3)
#imageanalysis #bioimageanalysis #microscopy #cellsegmentation #celltracking
This was a really fun one to write and revealed some exciting results! 🔬(3/3)
#imageanalysis #bioimageanalysis #microscopy #cellsegmentation #celltracking
Exploring the Impact of Variability in Cell Segmentation and Tracking Approaches
While manual segmentation and tracking of cells from microscopy images remain common practices in biological studies, our work demonstrates the inter- and intra-user variability that can arise from t...
doi.org
November 17, 2024 at 7:28 AM
Want to find out more? Take a look at our latest publication here: doi.org/10.1002/jemt...
This was a really fun one to write and revealed some exciting results! 🔬(3/3)
#imageanalysis #bioimageanalysis #microscopy #cellsegmentation #celltracking
This was a really fun one to write and revealed some exciting results! 🔬(3/3)
#imageanalysis #bioimageanalysis #microscopy #cellsegmentation #celltracking
🤖 How resilient are deep learning models to real-world imperfections in microscopy?
🔗 Practical guidelines for cell segmentation models under optical aberrations in microscopy, DOI: doi.org/10.1016/j.cs...
📚 CSBJ Quantum Biology and Biophotonics: www.csbj.org/qbio
#CellSegmentation #Microscopy
🔗 Practical guidelines for cell segmentation models under optical aberrations in microscopy, DOI: doi.org/10.1016/j.cs...
📚 CSBJ Quantum Biology and Biophotonics: www.csbj.org/qbio
#CellSegmentation #Microscopy
May 27, 2025 at 10:21 PM
🤖 How resilient are deep learning models to real-world imperfections in microscopy?
🔗 Practical guidelines for cell segmentation models under optical aberrations in microscopy, DOI: doi.org/10.1016/j.cs...
📚 CSBJ Quantum Biology and Biophotonics: www.csbj.org/qbio
#CellSegmentation #Microscopy
🔗 Practical guidelines for cell segmentation models under optical aberrations in microscopy, DOI: doi.org/10.1016/j.cs...
📚 CSBJ Quantum Biology and Biophotonics: www.csbj.org/qbio
#CellSegmentation #Microscopy
#Baysor
#CellSegmentation for 2D 3D image-based #SpatialTranscriptomics
Based on Transcript composition #MarkovRandomField
-/+Stain image #PriorSegmentationConfidence
Work with #MERFISH #smFISH #STARmap
⏫Detection of vascular cells
#NatureBiotech 2022
www.nature.com/articles/s41...
#CellSegmentation for 2D 3D image-based #SpatialTranscriptomics
Based on Transcript composition #MarkovRandomField
-/+Stain image #PriorSegmentationConfidence
Work with #MERFISH #smFISH #STARmap
⏫Detection of vascular cells
#NatureBiotech 2022
www.nature.com/articles/s41...
December 26, 2023 at 2:46 PM
#Baysor
#CellSegmentation for 2D 3D image-based #SpatialTranscriptomics
Based on Transcript composition #MarkovRandomField
-/+Stain image #PriorSegmentationConfidence
Work with #MERFISH #smFISH #STARmap
⏫Detection of vascular cells
#NatureBiotech 2022
www.nature.com/articles/s41...
#CellSegmentation for 2D 3D image-based #SpatialTranscriptomics
Based on Transcript composition #MarkovRandomField
-/+Stain image #PriorSegmentationConfidence
Work with #MERFISH #smFISH #STARmap
⏫Detection of vascular cells
#NatureBiotech 2022
www.nature.com/articles/s41...
CellSeg3D: self-supervised 3D cellsegmentation for fluorescence microscopy [updated]
Self-sup. models (WNet3D) for 3D cell seg. in microscopy, validated on diverse data, perf. similar to sup. methods.
Self-sup. models (WNet3D) for 3D cell seg. in microscopy, validated on diverse data, perf. similar to sup. methods.
December 23, 2024 at 1:18 PM
CellSeg3D: self-supervised 3D cellsegmentation for fluorescence microscopy [updated]
Self-sup. models (WNet3D) for 3D cell seg. in microscopy, validated on diverse data, perf. similar to sup. methods.
Self-sup. models (WNet3D) for 3D cell seg. in microscopy, validated on diverse data, perf. similar to sup. methods.