Software & Code

Miscellaneous Segmenter AGAVE Download Simularium The project Simularium aims to involve the wider biology community in building and analyzing spatial mechanistic simulations at different levels of scale and connecting them in the context of whole cells. This is a place to discuss Simularium issues and to exchange knowledge regarding the software & code we release.

Topic	Replies	Views	Activity
About the Software, Code & Imaging category Software & Code about , simularium , segmentation , agave , cell-feature-explorer	0	532	October 3, 2018
Cvapipeline_analysis - Can I download a smaller dataset from Quilt to test the integrated modeling and analysis pipeline? Download getting-started	1	20	January 22, 2021
Image size error- Same image has different sizes on different cpus? Segmenter	1	28	January 12, 2021
No module named 'aicssegmentation' Software & Code	7	63	December 22, 2020
Image dimensions seem to be assigned incorrectly by aicsimageio when running deep learning segmenter Segmenter	12	91	December 22, 2020
Simularium Bug Report for non-GitHub users Simularium bug-report	0	192	December 16, 2020
Network wide sourcing Miscellaneous	0	77	November 11, 2020
Batch Processing Error Segmenter	9	281	November 21, 2020
Opening segmentation .py files in python Miscellaneous segmentation	7	137	October 27, 2020
Errors with running the demo of the Classic Image Segmentation Miscellaneous segmentation	17	550	September 28, 2020
Using deep learning segmenter to segment whole cells Segmenter segmentation	3	152	September 3, 2020
Lamin B1 Segmentation Miscellaneous segmentation	1	140	August 30, 2020
Changing the code of playground_filament3D to support a 2D image Segmenter	1	157	August 13, 2020
The training images for the label free prediction Miscellaneous getting-started	1	149	August 13, 2020
Downloading LabelFree Image From Quilt Download cell-feature-explorer , getting-started	4	197	August 10, 2020
Error Loading Images in Look Up Table Segmenter getting-started	6	175	July 22, 2020
Fiji phenotyping help Miscellaneous	1	230	July 22, 2020
Error when running Look Up Table Demo Classic Image Segmentation Segmenter	6	182	July 21, 2020
Help Downloading Package Download	3	192	June 4, 2020
Filling empty pixels in 3D segmentation Segmenter segmentation	1	271	May 13, 2020
Batch processing for segmenter tool Segmenter	8	391	May 13, 2020
Writing to a TIFF File with Voxel Spacing [Error in Codebase] Miscellaneous aiscimageio	6	253	March 6, 2020
Downloading package Download	1	217	March 6, 2020
Using images generated with Agave AGAVE agave	1	242	February 24, 2020
Classic Image Segmentation installation Miscellaneous	9	384	February 12, 2020
Viewing Voxels Using ITK Widgets Miscellaneous	3	289	February 12, 2020
Agave download problem AGAVE agave	4	283	February 12, 2020
Dilation function speed Miscellaneous	5	298	January 31, 2020
Separating zstacks into individual cells Miscellaneous segmentation	2	270	January 30, 2020
Distance Transform 3D Segmenter	20	708	January 14, 2020

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Software & Code