3dmorph automatic analysis software Search Results


3dmorph  (Oxford Instruments)
99
Oxford Instruments 3dmorph
(A) Segmentation of microglia from light microscopy data produced by PrestoCell, user-edited PrestoCell, <t>3DMorph,</t> and the LABKIT extension in Imaris (top row). The mask generated by each tool is then compared visually to the ground state (bottom row, white), and image math is performed to identify false positives (“FP”, red) and false negatives (“FN”, cyan). Quantitative analysis comparing each segmentation to the ground state truth was performed using (B) F1 score, (C) Jaccard score, the (D) percent of false positive and (E) false negative pixels. Data are presented as mean ± SD, with each segmented cell as a data point. All files are compared to the ground truth, thus the percentage of false positives or negatives can be higher than 100. Scale bar: 10 μm.
3dmorph, supplied by Oxford Instruments, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/3dmorph/product/Oxford Instruments
Average 99 stars, based on 1 article reviews
3dmorph - by Bioz Stars, 2026-05
99/100 stars
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lsm 700 confocal microscope  (Carl Zeiss)
90
Carl Zeiss lsm 700 confocal microscope
(A) Segmentation of microglia from light microscopy data produced by PrestoCell, user-edited PrestoCell, <t>3DMorph,</t> and the LABKIT extension in Imaris (top row). The mask generated by each tool is then compared visually to the ground state (bottom row, white), and image math is performed to identify false positives (“FP”, red) and false negatives (“FN”, cyan). Quantitative analysis comparing each segmentation to the ground state truth was performed using (B) F1 score, (C) Jaccard score, the (D) percent of false positive and (E) false negative pixels. Data are presented as mean ± SD, with each segmented cell as a data point. All files are compared to the ground truth, thus the percentage of false positives or negatives can be higher than 100. Scale bar: 10 μm.
Lsm 700 Confocal Microscope, supplied by Carl Zeiss, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/result/lsm 700 confocal microscope/product/Carl Zeiss
Average 90 stars, based on 1 article reviews
lsm 700 confocal microscope - by Bioz Stars, 2026-05
90/100 stars
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Image Search Results


(A) Segmentation of microglia from light microscopy data produced by PrestoCell, user-edited PrestoCell, 3DMorph, and the LABKIT extension in Imaris (top row). The mask generated by each tool is then compared visually to the ground state (bottom row, white), and image math is performed to identify false positives (“FP”, red) and false negatives (“FN”, cyan). Quantitative analysis comparing each segmentation to the ground state truth was performed using (B) F1 score, (C) Jaccard score, the (D) percent of false positive and (E) false negative pixels. Data are presented as mean ± SD, with each segmented cell as a data point. All files are compared to the ground truth, thus the percentage of false positives or negatives can be higher than 100. Scale bar: 10 μm.

Journal: PLOS ONE

Article Title: PrestoCell: A persistence-based clustering approach for rapid and robust segmentation of cellular morphology in three-dimensional data

doi: 10.1371/journal.pone.0299006

Figure Lengend Snippet: (A) Segmentation of microglia from light microscopy data produced by PrestoCell, user-edited PrestoCell, 3DMorph, and the LABKIT extension in Imaris (top row). The mask generated by each tool is then compared visually to the ground state (bottom row, white), and image math is performed to identify false positives (“FP”, red) and false negatives (“FN”, cyan). Quantitative analysis comparing each segmentation to the ground state truth was performed using (B) F1 score, (C) Jaccard score, the (D) percent of false positive and (E) false negative pixels. Data are presented as mean ± SD, with each segmented cell as a data point. All files are compared to the ground truth, thus the percentage of false positives or negatives can be higher than 100. Scale bar: 10 μm.

Article Snippet: As expected from the graphical visualization, unedited PrestoCell segmentations have a lower F1 and Jaccard score, compared to either 3DMorph or Imaris ( ) .

Techniques: Light Microscopy, Produced, Generated

Interacting microglia were segmented and identified as single cells by 3DMorph (left white). The unedited PrestoCell output demonstrates the power of using nuclear identification, allowing the interacting cells to be resolved (right, pseudo-colored purple, and cyan). Scale bar: 10 μm, representative image of 41 interacting cells identified in 245 discrete masked microglia.

Journal: PLOS ONE

Article Title: PrestoCell: A persistence-based clustering approach for rapid and robust segmentation of cellular morphology in three-dimensional data

doi: 10.1371/journal.pone.0299006

Figure Lengend Snippet: Interacting microglia were segmented and identified as single cells by 3DMorph (left white). The unedited PrestoCell output demonstrates the power of using nuclear identification, allowing the interacting cells to be resolved (right, pseudo-colored purple, and cyan). Scale bar: 10 μm, representative image of 41 interacting cells identified in 245 discrete masked microglia.

Article Snippet: As expected from the graphical visualization, unedited PrestoCell segmentations have a lower F1 and Jaccard score, compared to either 3DMorph or Imaris ( ) .

Techniques: