Analysis Tools¶
This page lists analysis tools that are available on the IDEAS platform.
Calcium Imaging Processing¶
Core workflow¶
- Preprocess
- Downsample
- Spatial Bandpass Filter
- Motion Correct
- Project Movie
- ΔF/F
- PCA-ICA
- CNMF-E
- Manual ROIs
- Detect Events
- Automated Accept/Reject Cells
- Detect Events from GPIO Data
- Deconvolve Traces
- Trim Movie
Quality control¶
End-to-end workflows¶
These tools allow you to go from raw movies to events in a single step, combining several of the tools above into a single one.
suite2p individual tools¶
- suite2p binary conversion
- suite2p registration
- suite2p ROI detection
- suite2p ROI extraction
- suite2p ROI classification
- suite2p spike deconvolution
- suite2p output conversion
Conversion tools¶
- Convert to NWB
- Convert Cell Set To CSV And TIFF
- Convert CSV File to Events
- Convert Inscopix Movie To MP4
- Extract ISX Movie Timestamps
- Extract Synchronized ISXD And ISXB Movie Timestamps
- Extract Tracking Data From nVision Movie
- Convert Bruker 2P Data To ISXD Movie
Neural Circuit Analysis¶
Map annotations to neural data¶
Analyze neural data together with annotations¶
- Compare Neural Activity Across States
- Peri-Event Analysis Workflow
- Compare Neural Circuit Correlations Across States
Analyze neural data without annotations¶
Study Statistics¶
These tools allow you to combine results from individual recordings and compare across conditions.
- Combine and Compare Peri-Event Analysis Data
- Combine and Compare Population Activity Data
- Combine and Compare Correlation Data
- Combine And Compare Locomotion Data
- Combine and Compare Neural Activity Across Epochs