Back to the projects list
Convert Ephys data to NWB format to be distributed with publication.
- Laurel Keyes (Salk Institute of Biological Studies)
I am converting the electrophysioloy and behavioral data into NWB formats for a paper that will soon be published.
In this experiment, two mice competed for a reward. Each mouse was fitted with a headset to monitor neural activity. While we have complete ephys data for each subject, each competing pair has a single video containing both animals. Their positions are extracted from the video via an automated tracking software called AlphaTracker. I want to identify which animal is which in the video so their position information is loaded into the correct nwb structure.
- (Objective A) Understand how to convert epys data to nwb format and put the data into that format.
- (Objective B) Determine if any special extensions are required to get the data into the correct form and figure out how to do so.
- (Objective C) Understand how nwb formats can fit into the larger workflow of the Tyelab.
- (Objective D) Gain a greater familiarity with nwb and see how to add it to our existing processing pipelines.
Approach and Plan
- I plan to convert the data for a single subject all the way to the end, then work on automating the process for the remaining subjects. However, the naming convention was not standardized when the data was collected, so this could prove difficult.
Progress and Next Steps
-  I need to convert the raw data collected by SpikeGadgets into nwb format.
-  I am investigating some code by Frank Loren’s lab that may do this.
-  Convert the video data and extracted positions of subjects.
-  I need to add links between the competitors so the files can be joined
Background and References
Data is described in here (DOI: https://doi.org/10.21203/rs.3.rs-94115/v1)