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embryominer  (SourceForge net)
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The visualized sample data shows neural crest cell development of a zebrafish embryo from 12.5 − 28.0 hpf as a 3D trajectory rendering and an overlay on a 2D maximum intensity projection. The final part of the video shows an interactive 3D volume rendering visualization with superimposed detections of a C. elegans embryo that was imported to EmbryoMiner (Cell Tracking Challenge data set by the Waterston lab, The George Washington University, Washington D.C., USA, [ <xref ref-type=24 , 36 ]). " width="250" height="auto" />
Embryominer, supplied by SourceForge net, 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/product/embryominer/pmc05929571-137-6-15?v=SourceForge+net
Average 90 stars, based on 1 article reviews
embryominer - by Bioz Stars, 2026-07
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embryominer toolbox  (SourceForge net)
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SourceForge net embryominer toolbox
The visualized sample data shows neural crest cell development of a zebrafish embryo from 12.5 − 28.0 hpf as a 3D trajectory rendering and an overlay on a 2D maximum intensity projection. The final part of the video shows an interactive 3D volume rendering visualization with superimposed detections of a C. elegans embryo that was imported to EmbryoMiner (Cell Tracking Challenge data set by the Waterston lab, The George Washington University, Washington D.C., USA, [ <xref ref-type=24 , 36 ]). " width="250" height="auto" />
Embryominer Toolbox, supplied by SourceForge net, 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/product/embryominer/pmc05929571__pcbi__1006128__s003-5-4-8?v=SourceForge+net
Average 90 stars, based on 1 article reviews
embryominer toolbox - by Bioz Stars, 2026-07
90/100 stars
  Buy from Supplier

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The visualized sample data shows neural crest cell development of a zebrafish embryo from 12.5 − 28.0 hpf as a 3D trajectory rendering and an overlay on a 2D maximum intensity projection. The final part of the video shows an interactive 3D volume rendering visualization with superimposed detections of a C. elegans embryo that was imported to EmbryoMiner (Cell Tracking Challenge data set by the Waterston lab, The George Washington University, Washington D.C., USA, [ <xref ref-type=24 , 36 ]). " width="100%" height="100%">

Journal: PLoS Computational Biology

Article Title: EmbryoMiner: A new framework for interactive knowledge discovery in large-scale cell tracking data of developing embryos

doi: 10.1371/journal.pcbi.1006128

Figure Lengend Snippet: The visualized sample data shows neural crest cell development of a zebrafish embryo from 12.5 − 28.0 hpf as a 3D trajectory rendering and an overlay on a 2D maximum intensity projection. The final part of the video shows an interactive 3D volume rendering visualization with superimposed detections of a C. elegans embryo that was imported to EmbryoMiner (Cell Tracking Challenge data set by the Waterston lab, The George Washington University, Washington D.C., USA, [ 24 , 36 ]).

Article Snippet: The SciXMiner software and the new trajectory analysis extension package EmbryoMiner can be downloaded from https://sourceforge.net/projects/scixminer .

Techniques:

Erroneous tracks can be interactively repaired to obtain a set of corrected full-length tracks using maximum intensity projections and 3D volume rendering of the raw image data with superimposed detections and tracks. The curation process is assisted using link candidate predictions and different curation modes like a breadth-first or a depth-first curation strategies. In addition to the full data set view, it is possible to shrink the visualized region of interest to minimize distraction from the current link candidate by the surrounding tissue. The video shows a C. elegans embryo of the Cell Tracking Challenge that was imported to EmbryoMiner (data set by the Waterston lab, The George Washington University, Washington D.C., USA) [ <xref ref-type=24 , 36 ]. " width="100%" height="100%">

Journal: PLoS Computational Biology

Article Title: EmbryoMiner: A new framework for interactive knowledge discovery in large-scale cell tracking data of developing embryos

doi: 10.1371/journal.pcbi.1006128

Figure Lengend Snippet: Erroneous tracks can be interactively repaired to obtain a set of corrected full-length tracks using maximum intensity projections and 3D volume rendering of the raw image data with superimposed detections and tracks. The curation process is assisted using link candidate predictions and different curation modes like a breadth-first or a depth-first curation strategies. In addition to the full data set view, it is possible to shrink the visualized region of interest to minimize distraction from the current link candidate by the surrounding tissue. The video shows a C. elegans embryo of the Cell Tracking Challenge that was imported to EmbryoMiner (data set by the Waterston lab, The George Washington University, Washington D.C., USA) [ 24 , 36 ].

Article Snippet: The SciXMiner software and the new trajectory analysis extension package EmbryoMiner can be downloaded from https://sourceforge.net/projects/scixminer .

Techniques: