Single Mouse Tracking Annotated Dataset
Description of Data
Information for each dataset falls into 3 folders. Filenames portray the dataset split used in the paper that they belong to (eg Training_1.png or Validation_1.png).
- Ref/*.png: Input image (image before annotation)
- Seg/*.png: Segmentation image. Values = 0 are background. Values > 0 are mouse.
- Ell/*.txt: Ellipse-fit data. Data is tab-delimited as follows:
- X Center of Ellipse (px)
- Y Center of Ellipse (px)
- Minor Axis Length of Ellipse (px)
- Major Axis Length of Ellipse (px)
- Angle Direction (Degrees). 0 is down with + values going counter-clockwise.
Annotated Datasets
For simplicity, we share all training datasets at zenodo: Download Link for All Training Data
Additionally, we share the data in JAX’s ftp server with specific links below.
Standard Open Field Strain Survey
Description
We annotated 16234 training and 568 validation images of a single mouse in the same open field. The mouse can be one of multiple coat colors, but visually appears as a black, light-grey, or white color. In total, the dataset size is approximately 1.9GB. In the case the mouse’s posture created a poor ellipse-fit, portions of the mouse were removed (such as tail) to enable a good ellipse-fit.
24Hr Open Field Dataset
Description
We annotated 2099 training and 93 validation images of a single mouse in the same open field listed above augmented with bedding and a food container. All mice in this experiment appear black on video. There are 2 states, with visible light and with only infrared. The infrared-only imaging contains much higher visual noise.
KOMP Open Field Dataset
Description
We annotated 1000 training and 83 validation images of a single mouse in JAX’s KOMP2 open field arena. All mice have a black coat color.
Test Ground Truth Dataset
Description
To test the robustness of our system against conventional trackers that build a background model from multiple frames in a video, we re-sampled video a 20 minute video at 1 frame per second and annotated all the resulting frames (1179-1200 frames). We did this for the 6 environments in the paper of varying difficulty (Black, Gray, Piebald, Albino, 24Hr, KOMP2). The format of this data follows a DataSubset_FrameNumber format instead of Training/Validation_FrameNumber format.
Data download comment Aug 2024
Web browsers no longer support direct connections to FTP servers. You need to use different software, such as filezilla, to connect & download.
The projects here seem really interesting. I wanted to try out some models with these robust datasets but none of the download links seem to be working sadly.
Thank you for letting us know about the broken links. The links have been fixed and should be working now.
Vivek
You are welcome Mr. Vivek & thank you very much for access to the datasets.
I am a researcher from Spanish University of A Coruña, I was trying to access this very promissing data, however none of the download links are currently working.
Hello, I just checked the links and they appear to be active for me.
Yes, they are ok now. Thanks.
Hello,I am a student from china, and I want to download the mice dataset to my research. But the link of FTP requires username and password, what should I do? Thank for your help!
I know how to download ,thanks！
Glad you were able to download the data.
Vivek
Hi, I would like to download the dataset but the links are not working.
Thanks for your help!
They’re working for me. Be sure to use an FTP client, such as Filezilla, as it seems that general web browsers no longer support downloading ftp direct links.
I’ll also be uploading the same data later this week to Zenodo to have an alternative links for everything.