Software & Code

AGAVE Miscellaneous Download Segmenter 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	589	October 3, 2018
Dowload of set of naturel image to extruct features from the the ISH image of developing mouse brain Software & Code	1	20	April 9, 2021
3D image analysis after classic segmentation Software & Code segmentation	2	45	March 23, 2021
Aicsshparam/cvapipe_analysis - questions about adding new alignment functions Software & Code	1	53	March 9, 2021
Nucleus DAPI segmentation (only) Software & Code	8	124	February 25, 2021
Cvapipeline_analysis - Can I download a smaller dataset from Quilt to test the integrated modeling and analysis pipeline? Download getting-started	5	114	February 18, 2021
Image size error- Same image has different sizes on different cpus? Segmenter	7	139	February 15, 2021
No module named 'aicssegmentation' Software & Code	7	122	December 22, 2020
Image dimensions seem to be assigned incorrectly by aicsimageio when running deep learning segmenter Segmenter	12	194	December 22, 2020
Simularium Bug Report for non-GitHub users Simularium bug-report	0	231	December 16, 2020
Network wide sourcing Miscellaneous	0	117	November 11, 2020
Batch Processing Error Segmenter	9	347	November 21, 2020
Opening segmentation .py files in python Miscellaneous segmentation	7	190	October 27, 2020
Errors with running the demo of the Classic Image Segmentation Miscellaneous segmentation	17	656	September 28, 2020
Using deep learning segmenter to segment whole cells Segmenter segmentation	3	208	September 3, 2020
Lamin B1 Segmentation Miscellaneous segmentation	1	182	August 30, 2020
Changing the code of playground_filament3D to support a 2D image Segmenter	1	199	August 13, 2020
The training images for the label free prediction Miscellaneous getting-started	1	197	August 13, 2020
Downloading LabelFree Image From Quilt Download cell-feature-explorer , getting-started	4	255	August 10, 2020
Error Loading Images in Look Up Table Segmenter getting-started	6	230	July 22, 2020
Fiji phenotyping help Miscellaneous	1	275	July 22, 2020
Error when running Look Up Table Demo Classic Image Segmentation Segmenter	6	241	July 21, 2020
Help Downloading Package Download	3	257	June 4, 2020
Filling empty pixels in 3D segmentation Segmenter segmentation	1	324	May 13, 2020
Batch processing for segmenter tool Segmenter	8	463	May 13, 2020
Writing to a TIFF File with Voxel Spacing [Error in Codebase] Miscellaneous aiscimageio	6	329	March 6, 2020
Downloading package Download	1	263	March 6, 2020
Using images generated with Agave AGAVE agave	1	295	February 24, 2020
Classic Image Segmentation installation Miscellaneous	9	447	February 12, 2020
Viewing Voxels Using ITK Widgets Miscellaneous	3	342	February 12, 2020

Allen Cell Discussion Forum

Allen Cell Discussion Forum

Software & Code