Event.wiki - Vaa3D/Vaa3D_Wiki GitHub Wiki
Vaa3D Workshop Series
Purpose
This meeting series will feature some recent progresses of the widely used Vaa3D system (http://vaa3d.org). The audience could be interested biologists, computer scientists who want to study or use Vaa3D effectively and discuss application cases of Vaa3D. This event is being organized as a weekly meeting series, rotating in the day time of America and Asia to provide convenience for people to participate. The meetings' date, time, and how-to-join are the following.
Schedule
Up-coming
Please look forward to!
How to join
Zoom Meeting:
https://us02web.zoom.us/j/6543029624?pwd=bWdESGZqSHZLWCthUGhyMDVtS1QvUT09
- Meeting ID: 654 302 9624
- Passcode: Please contact the meeting coordinator Xin Chen [email protected] for passcode.
Past meetings
Monday, June 21, 2021
- Dr. Yimin Wang: "Vaa3D is the Right Tool for Big Biodata Visualization and Analysis" download here
- Dr. Liya Ding: "Automated Neuron Tracing in Vaa3D" download here
Monday, June 21, 2021
- 8:00 AM -9:00 AM PST
- 11:00 AM - 12:00 PM EST
- 11:00 PM - 0:00 AM Beijing Time.
Monday, June 28, 2021
-
Dr. Lijuan Liu: "How to produce precise full neuronal reconstructions efficiently through Vaa3D-TeraVR platform" download here
-
Dr. Shuxia Guo: "Make sense of swc files: information extraction via Vaa3D" download here Monday, June 28, 2021
-
7:00 PM -8:00 PM PST
-
10:00 PM - 11:00 PM EST
-
Tuesday, June 29, 2021 10:00 AM - 11:00 AM Beijing Time.
Tuesday, July 6, 2021
- Dr. Peng Xie: "Generation of 3D models with Vaa3D" download here
- Dr. Zongcai Ruan: "Transform SWC to 3D surface model" download here
Tuesday, July 6, 2021
- 8:00 AM -9:00 AM PST
- 11:00 AM - 12:00 PM EST
- 11:00 PM - 0:00 AM Beijing Time.
Monday, July 12, 2021
- Dr. Yufeng Liu: "Extend Your Research with Vaa3D Plugins" download here
- Dr. Hanchuan Peng: "Evolving Vaa3D: The Best is Yet to Come" download here
Monday, July 12, 2021
- Tuesday, July 13, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM -8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, July 19, 2021
- Dr. Liya Ding: "How to apply APP2?" download here
- Attendees practice under our guidance
Monday, July 19, 2021
- 8:00 AM -9:00 AM PST
- 11:00 AM - 12:00 PM EST
- 11:00 PM - 0:00 AM Beijing Time.
Monday, July 26, 2021
- Dr. Yimin Wang: "Visualizing big bio data using Vaa3D-TeraFly" download here
- Attendees practice under our guidance
Monday, July 26, 2021
- Tuesday, July 27, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM -8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, August 2, 2021
- Dr. Lijuan Liu: "How to reconstruct 3D neurons in accuracy and efficiency using Vaa3D" download here
- Attendees practice under our guidance
Monday, August 2, 2021
- 8:00 AM -9:00 AM PST
- 11:00 AM - 12:00 PM EST
- 11:00 PM - 0:00 AM Beijing Time.
Monday, August 9, 2021
- Dr. Peng Xie: "Generation of 3D models with Vaa3D" download here
- Attendees practice under our guidance
Monday, August 9, 2021
- Tuesday, August 10, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM -8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, August 16, 2021
- Dr. Shuxia Guo: "Make sense of swc files: information extraction via Vaa3D" download here
- Attendees practice under our guidance
Monday, August 16, 2021
- 8:00 AM -9:00 AM PST
- 11:00 AM - 12:00 PM EST
- 11:00 PM - 0:00 AM Beijing Time.
Monday, August 23, 2021
- Dr. Zongcai Ruan: "Transform SWC to 3D surface model" download here
- Attendees practice under our guidance
Monday, August 23, 2021
- Tuesday, August 24, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM -8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, August 30, 2021
- Dr. Yufeng Liu: "Extend Your Research with Vaa3D Plugins" download here
- Attendees practice under our guidance
Monday, August 30, 2021
- Tuesday, August 31, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM -8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, September 6, 2021
- Dr. Liya Ding: "Automated Neuron Tracing in Vaa3D" download here
- Attendees practice under our guidance
Monday, September 6, 2021
- Tuesday, September 7, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM -8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, September 13, 2021
- Dr. Hanchuan Peng: "Evolving Vaa3D: The Best is Yet to Come" download here
- Discussion
Monday, September 13, 2021
- Tuesday, September 14, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM -8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Tuesday, September 21, 2021
- Xiang Liu, Linlu Xu and Chao Song (Peking University): "Zebrafish whole-brain imaging and neural signal data processing"
- Yibing Wang and Xing Long (Peking University): "PACT reconstruction result show in 3D for better performance and photoacoustic image enhance and improvement"
Monday, September 21, 2021
- Wednesday, September 22, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM -8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, September 27, 2021
- Sumit Nanda (George Mason University): "Using a Vaa3D multi-signal plug-in to quantify neuronal cytoskeleton" download here
- Ty Hergenreder (University of Michigan): "Analyzing the morphology of whole Chandelier cells in mouse brains" download here
Monday, September 27, 2021
- 8:00 AM -9:00 AM PST
- 11:00 AM - 12:00 PM EST
- 11:00 PM - 0:00 AM Beijing Time.
Tuesday, October 12, 2021
- Keivan Moradi (University of California): "Image enhancement for light sheet microscopy: towards automated neuronal reconstruction" download here
- Discussion
Tuesday, October 12, 2021
- Wednesday, October 13, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM - 8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, October 18, 2021
- Xin Chen: "How to visualize various biodata via Vaa3D" download here
- Di Liu: "Vaa3D and SmartScope2" download here
Monday, October 18, 2021
- Tuesday, October 19, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM - 8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, October 25, 2021
- Yiwei Li: "Building a Vaa3D plugin to do neuron refinement" download here
- Sujun Zhao: "Quality Control for Reconstructions of Neuron Morphology at Whole Mouse Brain Level" download here
Monday, October 25, 2021
- Tuesday, October 26, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM - 8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, November 1, 2021
- Xiangqiao Ye: "How to write a Vaa3D plugin" download here
- Yingxin Li: "Vaa3D usage summary and tracing algorithm extension" download here
Monday, November 1, 2021
- Tuesday, November 2, 2021 10:00 AM - 11:00 AM Beijing Time
- 7:00 PM - 8:00 PM PST
- 10:00 PM - 11:00 PM EST.
Monday, November 8, 2021
- Yanyan Guo: "How to use TeraStitcher and NeuronStitcher" download here
- Yuanyuan Song: "How to use TeraFly to improve the efficiency and quality of reconstruction" download here
Monday, November 8, 2021
- Tuesday, November 9, 2021 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.
Monday, November 15, 2021
- Yaping Wang: "How to generate high-quality neuronal reconstructions semi-automatically through Vaa3D" download here
- Shengdian Jiang: "Radius Estimation and Bouton Detection of whole brain neurons" download here
Monday, November 15, 2021
- Tuesday, November 16, 2021 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.
Monday, November 22, 2021
- Jiangshan Liang and Luchen Deng: "Vaa3D , Update to QT6" download here
Monday, November 22, 2021
- Tuesday, November 23, 2021 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.
Monday, November 29, 2021
- Hui Ma: "Image Registration" download here
- Jie Xue: "Learn to use Vaa3D plugins" download here
Monday, November 29, 2021
- Tuesday, November 30, 2021 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.
Monday, December 6, 2021
- Shize Chen: "Create a plugin to mix images" download here
- Lulu Yin: "Reconstruction and quality control of neuron morphology in Vaa3D" download here
Monday, December 6, 2021
- Tuesday, December 7, 2021 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.
Monday, December 13, 2021
- Lingli Zhang: "Compiling Vaa3D plugins(Version Qt6) on windows" download here
- Jian Liu: "Plug-in system" download here
Monday, December 13, 2021
- Tuesday, December 14, 2021 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.
Monday, December 20, 2021
- Zhixi Yun: "Some simple operations combining Vaa3D and programming language" download here
- Jingzhou Yuan: "The usage of Vaa3D plugins" download here
Monday, December 20, 2021
- Tuesday, December 21, 2021 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.
Monday, December 27, 2021
- Ye Zhong: "The OPT Metric: Comparing Multiple Reconstructions of the Same Neuron" download here
- Yichen Guo: "Basic use of Vaa3D" download here
Monday, December 27, 2021
- Tuesday, December 28, 2021 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.
Monday, January 3, 2022
- Gaoyu Wang: "The implementation of APP2 in Vaa3D" download here
- Feng Xiong: "Neuron morphology analysis with Vaa3D" download here
Monday, January 3, 2022
- Tuesday, January 4, 2022 10:00 AM - 11:00 AM Beijing Time
- 6:00 PM - 7:00 PM PST
- 9:00 PM - 10:00 PM EST.