Activity for ToxTrac
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Vi Pa posted a comment on discussion General Discussion
Hi, I’d like to ask why I don’t have the option to set the zone type in the Zone Management section. The field doesn’t appear for me, but I’ve seen it shown in tutorials and videos (e.g., on YouTube). Where could the problem be? Thanks
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MariaV posted a comment on ticket #3
Hello, I have another question regarding the zones. I have just installed the 2025 1.1 ToxTrac version and in area definition>zone management I cannot find the Zone type menu (see attachment) to define the zones within the arena. I am trying to use the software for open field tracking with mice. Any suggestions? Thank you for your help!
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Brenda Maria Alho modified a comment on discussion General Discussion
Hi Maria! I’m using Grayscale (Light Intensity) as the color mode. After several tests with individual fish (tambaqui) at 1280×720 @ ~30 fps in a 60 × 38 cm tank, I noticed the detection improved significantly after increasing the minimum and maximum area values, since my fish was often larger than the default range: Filter → Area (pixel): Min Area: 800–1000 px Max Area: 10.000 px (Too-low Max Area made the fish appear “invisible” in many frames.) Other settings that made the tracking more stable:...
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Hi Maria! I’m using Grayscale (Light Intensity) as the color mode. After several tests with individual fish (tambaqui) at 1280×720 @ ~30 fps in a 60 × 38 cm tank, I noticed the detection improved significantly after increasing the minimum and maximum area values, since my fish was often larger than the default range: Filter → Area (pixel): Min Area: 1000–1200 px Max Area: 10.000 px (Too-low Max Area made the fish appear “invisible” in many frames.) Other settings that made the tracking more stable:...
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Maria Florencia Scaia posted a comment on discussion General Discussion
Hi Brenda! We are facing similar issues (also with fish). May I ask, in Advanced Detection, which color mode you chose?? Thank you in advance!
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Hi everyone, I’m using ToxTrac v2.61 to analyze the locomotor activity of Colossoma macropomum (tambaqui juveniles) recorded individually in 60 × 38 cm tanks at 1280×720 px and 30 fps. The detection works fine visually, but during tracking the software reports a low visibility rate (~0.36) and a large number of invisible frames, even though the fish is clearly visible during the whole video. I’ve already tried: Adjusting the threshold (80–120) and background subtraction; Increasing Max Displacement...
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Violet Hansen posted a comment on discussion General Discussion
Hi! Apologies for the long response time. Here is my sample video. https://vanderbilt365-my.sharepoint.com/✌️/g/personal/violet_hansen_vanderbilt_edu/Eam0GWEaVBhBgBZHeF2mPxkBX2esJFVpnoOeWsDUFDb3hg?e=E4Vxes Let me know if it works and/or if you have any questions. I appreciate the help! On Monday, July 7, 2025 at 12:42:25 AM CDT, Aman Rathore <amanp@users.sourceforge.net> wrote: can you send a sample clip your setup looks fine, you can use advance detection to add a background and subtract the fish...
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Eleanor Shell posted a comment on discussion General Discussion
Hello, I am having issues getting the program to recognize the calibration image. It is in the same resolution as the videos, this is a new error I have not dealt with before. Thanks for help in advance!
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Hello, I am having issues getting the program to recognize the calibration image. It is in the same resolution as the videos, this is a new error I have not dealt with before. Thanks for help in advance!
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Aman Rathore posted a comment on discussion General Discussion
it would be great if authors can host the source code on GitHub, as it'll help others also to contribute to new features.
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can you send a sample clip your setup looks fine, you can use advance detection to add a background and subtract the fish frame from that background
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create zones export statics open the sheet associated with the arena whose zone you want to target scroll left you will find something like this(image shown)
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create zones export statics open the sheet associated with the arena whose zone you want to target scroll left you will find something like this(image shown)
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jordaqn created ticket #3
Time spent in zones
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I would like to use ToxTrac to determine the time spent in each zone of a given arena but I cannot figure out how to view the statistics for this matter. In the versions section, there are notes decribing that time spent in each zone should be calculated automatically but i cannot view them/ find where they are stored. I select an arena, then define the zones but when I run the file and save the statistics, it does not download anything about the zones. Would anyone be able to shed some light on...
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I am a high school student participating in an internship at The Cigliola Lab at Vanderbilt University. We are attempting to discover new, efficient ways to track spinal cord regeneration through functional recovery tests. One way we are attempting this is by tracking the swim distance of adult zebrafish after injury over a few weeks. I am having difficulty with the ToxTrac program. I originally used laboratory lighting to film videos and input them into the program. Later, I set up a new testing...
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Mustafa Görmüş posted a comment on discussion General Discussion
can you add so we can calculate how many times the animal goes in and out zone of interest like in open field test i have an exapmle code in matlab % --- Configuration --- fileName = 'positions.txt'; % Name of your data file zoneXMin = 250; % Minimum X coordinate of the zone (mm) zoneXMax = 850; % Maximum X coordinate of the zone (mm) zoneYMin = 250; % Minimum Y coordinate of the zone (mm) zoneYMax = 850; % Maximum Y coordinate of the zone (mm) % --- Read Data --- try % Read the data file, skipping...
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Joe DS posted a comment on discussion General Discussion
Hi Alvaro, I also have the same issue with the program resolution, which is happening in v25.1.1 but was not a problem in v24.1.2 where the UI was scalable to the program window size.
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Alvaro Rodriguez posted a comment on discussion General Discussion
First I would recommend checking the last versions, cause we squeeze bugs whenever we find them. Also I you can try to directly talk to me via the contact mail, and if you send me the project data (the .tox project files with the project folder if it was generated and the video), so we can try to reproduce the problem and solve it. Regardless, this seems like an issue that pops its head from time to time, we think is usually related with write permissions and happening when trying to write on disk...
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Oh, I think this is related with the resolution of the screen. The UI is quite large, and unfortunately is not scalable right now. Still you probably have some success if you change the font size / resolution in windows itself. Did you have the same issue before, or it is something that happened with the new version?
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Changes
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1. Start Guide 2. Installing and running the software
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1. Start Guide 1. System Requirements
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1. Start Guide 1. System Requirements
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ToxTrac released /ToxTrac_v025.1.1.zip
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Theo Lester posted a comment on discussion General Discussion
hi there I have just recently downloaded the new update but the format appears to not show the whole screen and cannot click tracking below also has issues earlier on where tracking wpuod complete but wpuld close tbe app and gives no tracking information
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Home
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Home
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Home
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1. Start Guide 2. Installing and running the software
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1. Start Guide 2. Installing and running the software
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Changes
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Changes
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Tallant01 modified a comment on a wiki page
Installing and running the software is a straightforward process designed for user convenience. First, download the installer from the official website and follow the on-screen instructions. Once installed, launch the software and complete the initial setup. For any issues encountered during installation or use, Velocity Global customer service is available 24/7 to provide expert assistance. Their dedicated support team ensures a smooth experience, allowing users to maximize the software's capabilities...
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Cards
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Tiffany O. posted a comment on discussion General Discussion
I recommend checking storage space to ensure the data can be saved (I also had that issue). And yes, I meant selecting less arenas to be defined. Sometimes I do 1 arena at a time and it works while it is not successful when I try 5 arenas. The program should allow you to scrub through your video and help you confirm that only your highlighted organism or object is being tracked. I noticed that even at a threshold of 100 with bright signal can be lost in the middle of the video where my organism is...
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Mia S. posted a comment on discussion General Discussion
Hey Tiffany, thanks for your response! We've been troubleshooting this issue for a while. I wondered if you could clarify what you mean by "selecting less areas to process". Do you mean defining fewer arenas in our videos? For reference, our videos each have 6 circular arenas (petri dishes), and we've been trying to define all six when we analyze each video. But, we just now tried only defining three arenas out of six, and we got the same crash. We noticed that ToxTrac also tracks different "areas"...
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I am also having this issue, and separately receiving a "no data found, check calibration and area definition" after the completion menu. Even though I've processed the video before and yielded results. How I resolved the issue you've described is selecting less area's to process which would take you longer to get through the whole video if you have lots of samples. Good luck!
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Hi, I was wondering how to resolve this glitch where the program fully processes a video, says it is complete, then shuts down the whole program before we can look at the results. We tried compressing the videos but that didn't seem to help the tracking process. Any information/advice would be highly appreciated, thank you for considering!
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I will try to work on this, to see what I can do
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Bobby Hill modified a comment on discussion General Discussion
Hello, I've been working with the software and noticed that the Excel file generated for saving results is limited to 65535 rows, likely due to the use of the Excel 97-2003 format. Is there a way to save the results in a newer Excel format to display all the data? If not, can I manually change the format or access raw data to view tracking information for the entire duration? Additionally, is it possible to edit the data manually and have toxtrac recalculate the population with the provided information?...
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Hello, I've been working with the software and noticed that the Excel file generated for saving results is limited to 65535 rows, likely due to the use of the Excel 97-2003 format. Is there a way to save the results in a newer Excel format to display all the data? If not, can I manually change the format or access raw data to view tracking information for the entire duration? Additionally, is it possible to edit the data manually and have toxtrac recalculate the population with the provided information?...
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Color values in graphical results
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Dear Bobby Hill I have tested and examined all the data you sent me. I have uploaded a new version correcting 2 bugs, in the arena selection process and detection preview. After tested the new version with your video, I think you should be able to use it now without problems. Regarding the issue of the compressed video output. I have checked on that too. Im afraid the problem is not in the quality of the output video. But in the quality of the original video. If you export and cut a frame of the...
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Sorry for the delay, we had a couple of non-working days. I am taking a look into your data, expect feddback before the end of this week.
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Hi sorry to hear this. Can you sed me a copy of the images you have problems with, and the videos? I would also nees your configuration and project files to try to reproduce the crash in our side. You can send all the info to a.tajes@udc.es
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Morgan Abbott posted a comment on discussion General Discussion
Also, I am running into a problem where ToxTrac is crashing after running a video that has previously been analyzed in older versions.
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Hello, Thank you for the new, updated version. I am really excited to use it and see if it addresses some of the issues I've been having with trhe detection of false positives. I have run into an issue with my calibration pics used in previous versions. They are now failing to calibrate. Do you have any suggestions? Thank you!
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yes here is the video I used, https://drive.google.com/file/d/1U0GJ5g5FoPq9w0HVVxx3Bu66BRIzrWq9/view?usp=sharing I found two crashes by following these steps, some of them also occur randomly, also occur on 2 pc's with the same and alternate videos. The steps I follow to reproduce the 1st problem are usually this. 1: load the video 11-21 or any, default project location 2: switch to detection tab 3: switch to arena definition tab 4: click arena definition set to manual 5: click clear arenas 6: click...
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Magnus Andersson posted a comment on discussion Example videos
If you have a good example of configuring ToxTrac for your particular tracking environment, kindly share a video or a link to one here. It would greatly assist other users :- )
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Changes
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Dear Glad There are some sample videos you can download in this site. The OneDrive Folder is actually a shared folder from us, so people can upload files they have problems with so maybe we can help.
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Hey Bobby, Lets go Step By step, lets deal first with the arena crash. Can you send me your input video, and a step by step way to reproduce the issue on my side?
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Here is the compressed video.
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I also get the same issue when trying to do view tracking where the view tracking button shows the preview which is very nice, but the output video is very compressed.
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I am also having issues with the new version where if I place my video into the project, change arena to manual, and create an arena, then click detection the program crashes immediately.
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GLAD posted a comment on discussion General Discussion
Its amazing to find such a user friendly software to track the animals. thanks a lot for sharing it free for the researchers. but i come across a problem... the sample files are in Onedrive and i donot have an account to download it from Onedrive. for creating one the site asks nearly 1500rs. Is it possible to share the sample files in any other ways. thankyou
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Hello, I am using ToxTrac to track slow-moving insects and its been pretty great but I have some questions: How can I increase the maximum number of frames for generating the background? The default value of 1000 frames is not enough to capture the movement of my insects. Where can I find an updated wiki or documentation for ToxTrac? The ones I have seen are from 2017-2018 and they do not include the new features of the latest versions. Is it possible to set different parameters for different arenas...
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Hi Bobby, I suggest trying out the new version of ToxTrac, especially the Advanced Detection algorithms we've implemented. Also, based on the screenshot you shared, I recommend positioning the camera in a top-view position. This adjustment will help eliminate the perspective issue, ensuring more accurate tracking results.
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Hi Jaqueline, the new ToxTrac version can now be downloaded! The Advanced Detection algorithms will hopefully help you if you have noise in the data to improve tracking.
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Also when rendering the video it appears that it becomes very stretched, is there a way to render the video so that it appears as it did in the original video? or just a sliver like it does when its in the view tracking button?
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Firstly, I’d like to express my appreciation for this excellent program. It’s fast and provides a wealth of detail. However, I have a few questions and concerns. I’ve encountered an issue with the detection feature. When I attempt to select an object, the program often identifies small background objects as creatures. Adjusting the object color selection usually resolves this, but it seems to cause problems when multiple arenas are involved. It either removes the creature or duplicates it. Is it...
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Jaqueline Alves de Souza posted a comment on discussion General Discussion
Hi Magnus, thanks for help. Do you know when this new update will be available? I tried to change the background with filters, but not worked.
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Hi Jaqueline, It seems you may be encountering issues with reflections or noise, which complicates the exclusive detection of fish. I suggest using size as a criterion to filter out objects that are either smaller or larger than the fish you are tracking. Try to determine the pixel count of the fish in your tracking system, and then set precise boundaries based on this measurement. Additionally, I'm excited to inform you that we are about to release a NEW version of ToxTrac. This updated version...
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I recently installed ToxTrac to analyze fish behavior. However, when I go to the "detection" step, the software detects objects in my aquarium and not just my fish. Is there any way to select what my object of interest is? in this case, my animal model.
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Rebecca modified a comment on a wiki page
I am having trouble getting the software to pick up a rat (dark brown) on a light colored background. Do you have any recommendations for trouble shooting?
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I am having trouble getting the software to pick up a rat (dark brown) on a light colored background. Do you have any recommendations for trouble shooting?
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leigod posted a comment on discussion General Discussion
我也想知道
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我也想知道
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我也想知道
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我也想知道
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我也想知道
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我也想知道
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I found them! Thank you!
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Color values in graphical results
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Suhel Tamboli modified a comment on discussion General Discussion
I have recently started using ToxTrac. I was wondering if there is any way to insert the dimensions of the arena? Because I am not getting the arena size (width and height) accurately after tracking. Thanks in advance!
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I have recently started using ToxTrac. I was wondering if there is any way to insert the dimensions of the arena? Because I am not getting the arena size (width and height) accurately after tracking. Thanks in advance!
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I was wondering if it is possible to obtain speed of the rodent for all time points (at each frame)?
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Aliya jennifer posted a comment on a wiki page
Behavioural analysis based on video recording is becoming increasingly popular within research fields such as; ecology, medicine, ecotoxicology and toxicology. However, the programs available to analyse the data, which are free of cost, user-friendly, versatile, robust, fast and provide reliable statistics for different organisms (invertebrates, vertebrates and mammals) are significantly limited check at company website We present an automated open-source executable software (ToxTrac) for image-based...
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