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README.md
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| 1 |
+
# LibriBrain MEG Preprocessed Dataset
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| 2 |
+
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| 3 |
+
Preprocessed magnetoencephalography (MEG) recordings with phoneme labels from the LibriBrain dataset, optimized for fast loading during machine learning model training.
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| 4 |
+
|
| 5 |
+
This dataset was created for the [LibriBrain 2025 Competition](https://neural-processing-lab.github.io/2025-libribrain-competition/) (now concluded).
|
| 6 |
+
|
| 7 |
+
## Dataset Overview
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| 8 |
+
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| 9 |
+
### MEG Recording Specifications
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| 10 |
+
- **Channels**: 306 total (102 magnetometers + 204 gradiometers)
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| 11 |
+
- **Sampling Rate**: 250 Hz
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| 12 |
+
- **Duration**: ~52 hours of recordings
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| 13 |
+
- **Subject**: Single English speaker listening to Sherlock Holmes audiobooks
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| 14 |
+
- **Phoneme Instances**: ~1.5 million
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| 15 |
+
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| 16 |
+
### Phoneme Inventory
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| 17 |
+
39 ARPAbet phonemes with position encoding:
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| 18 |
+
- **Vowels** (15): aa, ae, ah, ao, aw, ay, eh, er, ey, ih, iy, ow, oy, uh, uw
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| 19 |
+
- **Consonants** (24): b, ch, d, dh, f, g, hh, jh, k, l, m, n, ng, p, r, s, sh, t, th, v, w, y, z, zh
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| 20 |
+
- **Special**: oov (out-of-vocabulary)
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| 21 |
+
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| 22 |
+
Position markers: B (beginning), I (inside), E (end), S (singleton)
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| 23 |
+
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| 24 |
+
### Signal Processing
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| 25 |
+
All MEG data has been preprocessed through the following pipeline:
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| 26 |
+
1. Bad channel removal
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| 27 |
+
2. Signal Space Separation (SSS) for noise reduction
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| 28 |
+
3. Notch filtering for powerline noise removal
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| 29 |
+
4. Bandpass filtering (0.1-125 Hz)
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| 30 |
+
5. Downsampling to 250 Hz
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| 31 |
+
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| 32 |
+
## Preprocessing and Grouping
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| 33 |
+
|
| 34 |
+
This dataset contains pre-grouped and averaged MEG samples for significantly faster data loading during training. Instead of grouping samples on-the-fly (which is computationally expensive), samples have been pre-grouped at various levels.
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| 35 |
+
|
| 36 |
+
### Available Grouping Configurations
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| 37 |
+
- `grouped_5`: 5 samples averaged together
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| 38 |
+
- `grouped_10`: 10 samples averaged together
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| 39 |
+
- `grouped_15`: 15 samples averaged together
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| 40 |
+
- `grouped_20`: 20 samples averaged together
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| 41 |
+
- `grouped_25`: 25 samples averaged together
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| 42 |
+
- `grouped_30`: 30 samples averaged together
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| 43 |
+
- `grouped_35`: 35 samples averaged together (partial - train only)
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| 44 |
+
- `grouped_45`: 45 samples averaged together
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| 45 |
+
- `grouped_50`: 50 samples averaged together
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| 46 |
+
- `grouped_55`: 55 samples averaged together
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| 47 |
+
- `grouped_60`: 60 samples averaged together
|
| 48 |
+
- `grouped_100`: 100 samples averaged together
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| 49 |
+
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| 50 |
+
Each configuration contains:
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| 51 |
+
- `train_grouped.h5`: Training data
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| 52 |
+
- `validation_grouped.h5`: Validation data
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| 53 |
+
- `test_grouped.h5`: Test data
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| 54 |
+
- `paths.yaml`: File path references
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| 55 |
+
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| 56 |
+
### Why Use Grouped Data?
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| 57 |
+
- **Faster Loading**: Pre-computed grouping eliminates runtime averaging overhead
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| 58 |
+
- **Memory Efficient**: Smaller file sizes for higher grouping levels
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| 59 |
+
- **Flexible**: Choose grouping level based on your accuracy vs. speed requirements
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| 60 |
+
- **Standardized**: Consistent preprocessing across all configurations
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| 61 |
+
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| 62 |
+
## Installation
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| 63 |
+
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| 64 |
+
This dataset requires the modified pnpl library for loading:
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| 65 |
+
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| 66 |
+
```bash
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| 67 |
+
pip install git+https://github.com/September-Labs/pnpl.git
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| 68 |
+
```
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| 69 |
+
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| 70 |
+
## Usage
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| 71 |
+
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| 72 |
+
```python
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| 73 |
+
from pnpl.datasets import GroupedDataset
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| 74 |
+
|
| 75 |
+
# Load preprocessed data with 100-sample grouping
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| 76 |
+
train_dataset = GroupedDataset(
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| 77 |
+
preprocessed_path="data/grouped_100/train_grouped.h5",
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| 78 |
+
load_to_memory=True # Optional: load entire dataset to memory for faster access
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| 79 |
+
)
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| 80 |
+
|
| 81 |
+
val_dataset = GroupedDataset(
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| 82 |
+
preprocessed_path="data/grouped_100/validation_grouped.h5",
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| 83 |
+
load_to_memory=True
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| 84 |
+
)
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| 85 |
+
|
| 86 |
+
# Get a sample
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| 87 |
+
sample = train_dataset[0]
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| 88 |
+
meg_data = sample['meg'] # Shape: (306, time_points)
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| 89 |
+
phoneme_label = sample['phoneme'] # Phoneme class index
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| 90 |
+
|
| 91 |
+
# Use with PyTorch DataLoader
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| 92 |
+
from torch.utils.data import DataLoader
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| 93 |
+
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| 94 |
+
dataloader = DataLoader(
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| 95 |
+
train_dataset,
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| 96 |
+
batch_size=32,
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| 97 |
+
shuffle=True,
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| 98 |
+
num_workers=4
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| 99 |
+
)
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| 100 |
+
```
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| 101 |
+
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| 102 |
+
## Data Structure
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| 103 |
+
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| 104 |
+
```
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| 105 |
+
data/
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| 106 |
+
├── grouped_5/
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| 107 |
+
│ ├── train_grouped.h5
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| 108 |
+
│ ├── validation_grouped.h5
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| 109 |
+
│ ├── test_grouped.h5
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| 110 |
+
│ └── paths.yaml
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| 111 |
+
├── grouped_10/
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| 112 |
+
│ ├── train_grouped.h5
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| 113 |
+
│ ├── validation_grouped.h5
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| 114 |
+
│ ├── test_grouped.h5
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| 115 |
+
│ └── paths.yaml
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| 116 |
+
├── ...
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| 117 |
+
└── grouped_100/
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| 118 |
+
├── train_grouped.h5
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| 119 |
+
├── validation_grouped.h5
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| 120 |
+
├── test_grouped.h5
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| 121 |
+
└── paths.yaml
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| 122 |
+
```
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| 123 |
+
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| 124 |
+
## File Sizes
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| 125 |
+
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| 126 |
+
| Grouping | Train | Validation | Test | Total |
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| 127 |
+
|----------|-------|------------|------|-------|
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| 128 |
+
| grouped_5 | 45.6 GB | 425 MB | 456 MB | ~47 GB |
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| 129 |
+
| grouped_10 | 22.8 GB | 213 MB | 228 MB | ~24 GB |
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| 130 |
+
| grouped_20 | 11.4 GB | 106 MB | 114 MB | ~12 GB |
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| 131 |
+
| grouped_50 | 4.6 GB | 37 MB | 42 MB | ~4.7 GB |
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| 132 |
+
| grouped_100 | 2.3 GB | 19 MB | 21 MB | ~2.4 GB |
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| 133 |
+
|
| 134 |
+
## Dataset Splits
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| 135 |
+
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| 136 |
+
- **Train**: 88 sessions (~51 hours)
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| 137 |
+
- **Validation**: 1 session (~0.36 hours)
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| 138 |
+
- **Test**: 1 session (~0.38 hours)
|
| 139 |
+
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| 140 |
+
## Citation
|
| 141 |
+
|
| 142 |
+
If you use this dataset, please cite the LibriBrain competition:
|
| 143 |
+
|
| 144 |
+
```bibtex
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| 145 |
+
@misc{libribrain2025,
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| 146 |
+
title={LibriBrain: A Dataset for Speech Decoding from Brain Signals},
|
| 147 |
+
author={Neural Processing Lab},
|
| 148 |
+
year={2025},
|
| 149 |
+
url={https://neural-processing-lab.github.io/2025-libribrain-competition/}
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| 150 |
+
}
|
| 151 |
+
```
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| 152 |
+
|
| 153 |
+
## License
|
| 154 |
+
|
| 155 |
+
Please refer to the original LibriBrain dataset license terms.
|
| 156 |
+
|
| 157 |
+
## Acknowledgments
|
| 158 |
+
|
| 159 |
+
This preprocessed version was created to facilitate faster training for the LibriBrain 2025 Competition. The original dataset and competition were organized by the Neural Processing Lab.
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