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technion: restructure the data cards to the common layout

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technion/bladder/README.md CHANGED
@@ -1,5 +1,6 @@
1
  ---
2
- pretty_name: "OpenH-RF — Technion Bladder Pre-Beamformed Channel Data"
 
3
  license: cc-by-4.0
4
  task_categories:
5
  - image-to-image
@@ -16,37 +17,23 @@ size_categories:
16
  - 1K<n<10K
17
  ---
18
 
19
- # OpenH-RF — Bladder pre-beamformed RF channel data
20
 
21
  ![Transverse suprapubic view of the bladder, one 10-frame cine loop](assets/cine.gif)
22
 
23
- Transverse suprapubic view: one cine loop (10 frames) from [`data/a1.hdf5`](https://huggingface.co/datasets/nvidia/OpenH-RF/blob/main/technion/bladder/data/a1.hdf5).
24
-
25
- `zea` renders it straight from the Hub with the
26
- `pipeline.yaml` in this folder. Try it out with the following command:
27
-
28
- ```bash
29
- zea process \
30
- --dataset hf://nvidia/OpenH-RF/technion/bladder/data/a1.hdf5 \
31
- --config hf://nvidia/OpenH-RF/technion/bladder/pipeline.yaml \
32
- --n-frames 10
33
- ```
34
 
35
  ## Dataset Description
36
 
37
- Real, **in-vivo human** pre-beamformed ultrasound **channel data** for bladder
38
- imaging: per-element I/Q recorded before receive beamforming on a 64-element
39
- phased array — a sector scan of 180 transmit beams steered over ±45.13° (≈90°),
40
- one image line per transmit (steering angles in `scan.polar_angles`). 1,508
41
- frames across 14 sweeps from seven subjects. Acquired on a GE research system in
42
- tissue-harmonic mode; the harmonic echo is demodulated to I/Q at 3.44 MHz and
43
- band-pass filtered. No paired image is supplied — the B-mode is reproduced from
44
- the channel data by the released beamformer.
45
 
46
  ## Dataset Contributor(s)
47
 
48
- Sanketh Vedula, Ortal Senouf, Dean Zadok, Alex M. Bronstein (PI) —
49
- Technion – Israel Institute of Technology. Primary contact: sanketh@campus.technion.ac.il.
 
 
 
50
 
51
  ## Dataset Creation Date
52
 
@@ -54,40 +41,38 @@ Source data 2018; converted to the OpenH-RF (zea) format 07/16/2026.
54
 
55
  ## License / Terms of Use
56
 
57
- CC BY 4.0. The contributors confirm intent to release under CC BY 4.0 with no
58
- third-party IP encumbrances (proposal §8).
59
 
60
  ## Intended Usage
61
 
62
- Primary: **generalized reconstruction** (§6.1) — learned receive beamforming and
63
- image reconstruction from raw channel data. The quasi-static bladder is also
64
- suited to multi-line-transmission (MLT) emulation and high-frame-rate research,
65
- and to anatomy/cohort interpretation (§6.5).
66
 
67
  ## Dataset Characterization
68
 
69
- - **Data Collection Method:** in-vivo human (research platform) — GE Vivid S70
70
- scanner with raw per-element channel access, tissue-harmonic mode.
71
- - **Labeling Method:** N/A — no per-frame image label; the `zea.Pipeline` in
72
- `pipeline.yaml` reconstructs a B-mode from the channel data for validation.
73
- - **Acquisition system:** GE Vivid S70 scanner; GE 3Sc-RS 64-element phased-array
74
- probe, 0.30 mm pitch; sector scan, 180 transmit beams steered over ±45.13°
75
- (≈90.25° FOV), one image line per transmit.
76
- Per proposal: 2.56-cycle 1.6 MHz transmit, no transmit apodization,
77
- tissue-harmonic mode, harmonic echo demodulated to I/Q at 3.44 MHz and filtered,
78
- ~18 fps; transversal plane with slow longitudinal probe sweep to decorrelate
79
- frames.
 
 
 
 
 
 
 
80
 
81
  ## Dataset Format
82
 
83
- zea file format, one HDF5 file per sweep (`data/<subject>.hdf5`, e.g. `a1.hdf5`,
84
- `ak.hdf5`, `s2.hdf5`). The source complex `double` samples were repackaged to
85
- `float32` I/Q with I and Q on the final channel axis (`n_ch = 2`); values are
86
- otherwise verbatim (band-pass filtered baseband IQ, as archived). Each file
87
- carries `metadata/subject/{id,type=human}`, `metadata/credit`, and
88
- `metadata/annotations/{anatomy=bladder, label=in vivo, view=transverse suprapubic
89
- pelvic ultrasound}`. Probe model (`probe.name = GE 3Sc-RS`) and scanner
90
- (`us_machine = GE Vivid S70`) are stored too.
91
 
92
  ## Dataset Quantification
93
 
@@ -108,12 +93,7 @@ pelvic ultrasound}`. Probe model (`probe.name = GE 3Sc-RS`) and scanner
108
 
109
  ## Subject Metadata
110
 
111
- **Seven in-vivo human volunteers**, 14 sweeps, 1,508 frames. (The proposal's
112
- "six" was an undercount; verified from the acquisitions to be seven distinct
113
- volunteers.) No phantom is included in this collection — the calibration phantom
114
- is a separate submission (`../phantom/`). No PHI stored: only anonymized
115
- `subject.id`, `subject.type = human`, and `annotations.anatomy = bladder`.
116
- Age and sex were not recorded for these acquisitions.
117
 
118
  | Subject | Sweeps (files) | Frames |
119
  |---|---|---|
@@ -127,38 +107,19 @@ Age and sex were not recorded for these acquisitions.
127
 
128
  ## Data Validation
129
 
130
- `reconstruct.py` reconstructs a B-mode from `raw_data` using the `zea.Pipeline`
131
- defined in `pipeline.yaml`: delay-and-sum beamforming on a polar scanline grid
132
- (one image line per transmit, receive dynamic focusing) → envelope
133
- detection → normalization → log compression → sector scan conversion. Run it on
134
- any file to reproduce a reference frame:
135
-
136
- ```
137
- python reconstruct.py
138
- ```
139
 
140
- Reference output: `bmode.png` — frame 30 of `data/a1.hdf5` (in `assets/`). The
141
- pipeline matches the acquisition's own receive-beamforming geometry
142
- (`code/processing/`), so the reconstruction reproduces the expected sector
143
- B-mode.
144
 
145
  ## Known Issues
146
 
147
- - **No paired image target** (unlike the cardiac set); the B-mode is derived from
148
- the channel data, not supplied.
149
- - **Transmit fundamental (1.6 MHz) not stored** — only the 3.44 MHz demodulation
150
- frequency is in the files, so `center_frequency` equals the demodulation
151
- frequency.
152
 
153
  ## Ethical Considerations
154
 
155
- **Privacy safeguards (HIPAA and GDPR).** Pre-beamformed RF channel data contains
156
- no facial or otherwise identifying imagery. All records are de-identified to the
157
- HIPAA Safe Harbor standard, with direct identifiers removed and any dates
158
- generalized to bands. As an EU institution we additionally comply with GDPR,
159
- holding any pseudonymized subject identifiers separately on access-controlled
160
- storage and never sharing them. The released data are de-identified and contain
161
- only the channel signals and acquisition metadata.
162
 
163
- **Ethics.** The data were collected under ethical best practices on healthy
164
- volunteers.
 
1
  ---
2
+ name: technion-bladder
3
+ pretty_name: "Technion Bladder Pre-Beamformed Channel Data"
4
  license: cc-by-4.0
5
  task_categories:
6
  - image-to-image
 
17
  - 1K<n<10K
18
  ---
19
 
20
+ # Technion In-vivo Bladder Pre-beamformed RF Channel Data
21
 
22
  ![Transverse suprapubic view of the bladder, one 10-frame cine loop](assets/cine.gif)
23
 
24
+ *Transverse suprapubic view: one cine loop (10 frames) from [`data/a1.hdf5`](https://huggingface.co/datasets/nvidia/OpenH-RF/blob/main/technion/bladder/data/a1.hdf5).*
 
 
 
 
 
 
 
 
 
 
25
 
26
  ## Dataset Description
27
 
28
+ Real, **in-vivo human** pre-beamformed ultrasound **channel data** for bladder imaging: per-element I/Q recorded before receive beamforming on a 64-element phased array — a sector scan of 180 transmit beams steered over ±45.13° (≈90°), one image line per transmit (steering angles in `scan.polar_angles`). 1,508 frames across 14 sweeps from seven subjects. Acquired on a GE research system in tissue-harmonic mode; the harmonic echo is demodulated to I/Q at 3.44 MHz and band-pass filtered. No paired image is supplied — the B-mode is reproduced from the channel data by the released beamformer.
 
 
 
 
 
 
 
29
 
30
  ## Dataset Contributor(s)
31
 
32
+ - Sanketh Vedula <sanketh@campus.technion.ac.il> (primary contact)
33
+ - Ortal Senouf
34
+ - Dean Zadok
35
+ - Alex M. Bronstein (PI)
36
+ - Technion – Israel Institute of Technology
37
 
38
  ## Dataset Creation Date
39
 
 
41
 
42
  ## License / Terms of Use
43
 
44
+ [Creative Commons Attribution 4.0 International (CC BY 4.0)](https://creativecommons.org/licenses/by/4.0/legalcode.en). Retain attribution and identify modifications when reusing the data.
 
45
 
46
  ## Intended Usage
47
 
48
+ Primary: **generalized reconstruction** (§6.1) — learned receive beamforming and image reconstruction from raw channel data. The quasi-static bladder is also suited to multi-line-transmission (MLT) emulation and high-frame-rate research, and to anatomy/cohort interpretation (§6.5).
 
 
 
49
 
50
  ## Dataset Characterization
51
 
52
+ - **Data Collection Method:** in-vivo human (research platform) — GE Vivid S70 scanner with raw per-element channel access, tissue-harmonic mode.
53
+ - **Labeling Method:** N/A — no per-frame image label; the `zea.Pipeline` in `pipeline.yaml` reconstructs a B-mode from the channel data for validation.
54
+ - **Acquisition system:** GE Vivid S70 scanner; GE 3Sc-RS 64-element phased-array probe, 0.30 mm pitch; sector scan, 180 transmit beams steered over ±45.13° (≈90.25° FOV), one image line per transmit. Per proposal: 2.56-cycle 1.6 MHz transmit, no transmit apodization, tissue-harmonic mode, harmonic echo demodulated to I/Q at 3.44 MHz and filtered, ~18 fps; transversal plane with slow longitudinal probe sweep to decorrelate frames.
55
+
56
+ ## Processing the Dataset
57
+
58
+ The acquisitions can be processed with the `pipeline.yaml` definition in this folder and the [zea library](https://github.com/tue-bmd/zea).
59
+
60
+ `zea` streams the data from the Hugging Face Hub and processes it according to the pipeline. You can try it out with the following command:
61
+
62
+ ```bash
63
+ zea process \
64
+ --dataset hf://nvidia/OpenH-RF/technion/bladder/data/a1.hdf5 \
65
+ --config hf://nvidia/OpenH-RF/technion/bladder/pipeline.yaml \
66
+ --n-frames 10
67
+ ```
68
+
69
+ Alternatively, you can use the `reconstruct.py` [script](https://github.com/open-h/OpenH-RF/blob/main/datasets/technion/bladder/reconstruct.py) as provided in the [OpenH-RF GitHub repository](https://github.com/open-h/OpenH-RF).
70
 
71
  ## Dataset Format
72
 
73
+ [zea v0.1.4](https://github.com/tue-bmd/zea)
74
+
75
+ zea file format, one HDF5 file per sweep (`data/<subject>.hdf5`, e.g. `a1.hdf5`, `ak.hdf5`, `s2.hdf5`). The source complex `double` samples were repackaged to `float32` I/Q with I and Q on the final channel axis (`n_ch = 2`); values are otherwise verbatim (band-pass filtered baseband IQ, as archived). Each file carries `metadata/subject/{id,type=human}`, `metadata/credit`, and `metadata/annotations/{anatomy=bladder, label=in vivo, view=transverse suprapubic pelvic ultrasound}`. Probe model (`probe.name = GE 3Sc-RS`) and scanner (`us_machine = GE Vivid S70`) are stored too.
 
 
 
 
 
76
 
77
  ## Dataset Quantification
78
 
 
93
 
94
  ## Subject Metadata
95
 
96
+ **Seven in-vivo human volunteers**, 14 sweeps, 1,508 frames. (The proposal's "six" was an undercount; verified from the acquisitions to be seven distinct volunteers.) No phantom is included in this collection — the calibration phantom is a separate submission (`../phantom/`). No PHI stored: only anonymized `subject.id`, `subject.type = human`, and `annotations.anatomy = bladder`. Age and sex were not recorded for these acquisitions.
 
 
 
 
 
97
 
98
  | Subject | Sweeps (files) | Frames |
99
  |---|---|---|
 
107
 
108
  ## Data Validation
109
 
110
+ `reconstruct.py` reconstructs a B-mode from `raw_data` using the `zea.Pipeline` defined in `pipeline.yaml`: delay-and-sum beamforming on a polar scanline grid (one image line per transmit, receive dynamic focusing) → envelope detection → normalization → log compression → sector scan conversion.
 
 
 
 
 
 
 
 
111
 
112
+ Reference output: `bmode.png` — frame 30 of `data/a1.hdf5` (in `assets/`). The pipeline matches the acquisition's own receive-beamforming geometry (`code/processing/`), so the reconstruction reproduces the expected sector B-mode.
 
 
 
113
 
114
  ## Known Issues
115
 
116
+ - **No paired image target** (unlike the cardiac set); the B-mode is derived from the channel data, not supplied.
117
+ - **Transmit fundamental (1.6 MHz) not stored** — only the 3.44 MHz demodulation frequency is in the files, so `center_frequency` equals the demodulation frequency.
 
 
 
118
 
119
  ## Ethical Considerations
120
 
121
+ **Privacy safeguards (HIPAA and GDPR).** Pre-beamformed RF channel data contains no facial or otherwise identifying imagery. All records are de-identified to the HIPAA Safe Harbor standard, with direct identifiers removed and any dates generalized to bands. As an EU institution we additionally comply with GDPR, holding any pseudonymized subject identifiers separately on access-controlled storage and never sharing them. The released data are de-identified and contain only the channel signals and acquisition metadata.
122
+
123
+ **Ethics.** The data were collected under ethical best practices on healthy volunteers.
 
 
 
 
124
 
125
+ The contributors confirm intent to release under CC BY 4.0 with no third-party IP encumbrances (proposal §8).
 
technion/cardiac/README.md CHANGED
@@ -1,5 +1,6 @@
1
  ---
2
- pretty_name: "OpenH-RF — Technion Cardiac Pre-Beamformed Channel Data"
 
3
  license: cc-by-4.0
4
  task_categories:
5
  - image-to-image
@@ -16,36 +17,23 @@ size_categories:
16
  - n<1K
17
  ---
18
 
19
- # OpenH-RF — Cardiac pre-beamformed RF channel data (paired with DAS targets)
20
 
21
  ![Apical four-chamber view, one 32-frame cardiac cine loop](assets/cine.gif)
22
 
23
- Apical four-chamber view: one cine loop (32 frames) from [`data/c1.hdf5`](https://huggingface.co/datasets/nvidia/OpenH-RF/blob/main/technion/cardiac/data/c1.hdf5).
24
-
25
- `zea` renders it straight from the Hub with the
26
- `pipeline.yaml` in this folder. Try it out with the following command:
27
-
28
- ```bash
29
- zea process \
30
- --dataset hf://nvidia/OpenH-RF/technion/cardiac/data/c1.hdf5 \
31
- --config hf://nvidia/OpenH-RF/technion/cardiac/pipeline.yaml \
32
- --n-frames 32
33
- ```
34
 
35
  ## Dataset Description
36
 
37
- Real, **in-vivo human** pre-beamformed ultrasound **channel data** for cardiac
38
- imaging: per-element I/Q recorded before receive beamforming on a 64-element
39
- phased array — a sector scan of 140 transmit beams steered over ±37.5°, one image
40
- line per transmit (steering angles in `scan.polar_angles`). Each frame is **paired with
41
- its conventional delay-and-sum reconstruction** (stored as `beamformed_data`),
42
- making this a ready-made input→target set for learned reconstruction /
43
- beamforming. 777 frames across 25 cine loops from six subjects (a–f).
44
 
45
  ## Dataset Contributor(s)
46
 
47
- Sanketh Vedula, Ortal Senouf, Dean Zadok, Alex M. Bronstein (PI) —
48
- Technion – Israel Institute of Technology. Primary contact: sanketh@campus.technion.ac.il.
 
 
 
49
 
50
  ## Dataset Creation Date
51
 
@@ -53,45 +41,45 @@ Acquired 2018; converted to the OpenH-RF (zea) format 07/16/2026.
53
 
54
  ## License / Terms of Use
55
 
56
- CC BY 4.0. The data is the contributors' own research acquisition, cleared for
57
- CC BY 4.0 with no third-party IP encumbrances.
58
 
59
  ## Intended Usage
60
 
61
- Primary: **generalized reconstruction** (§6.1) — learning to map raw per-element
62
- channel data to a focused image (learned receive/transmit beamforming,
63
- super-resolution, clutter suppression), trained and evaluated against the paired
64
- delay-and-sum target. Secondary: motion estimation across the cardiac cine loops
65
- (§6.4) and anatomy/cohort interpretation (§6.5).
66
 
67
  ## Dataset Characterization
68
 
69
- - **Data Collection Method:** in-vivo human (research platform) — GE Vivid S70
70
- scanner with raw per-element channel access.
71
- - **Labeling Method:** derived ground truth — the paired `beamformed_data` is the
72
- conventional delay-and-sum reconstruction of each frame.
73
- - **Acquisition system:** GE Vivid S70 scanner; GE 3Sc-RS 64-element phased-array
74
- probe, 0.30 mm pitch; sector scan, 140 acquisition lines over a ~75° sector
75
- (±37.5°); 2.5 MHz transmit; apical four-chamber view (A4C).
 
 
 
 
 
 
 
 
 
 
 
76
 
77
  ## Dataset Format
78
 
79
- zea file format, one HDF5 file per cine loop (`data/<subject><clip>.hdf5`, e.g.
80
- `a1.hdf5` = subject a, clip 1; `f2.hdf5` = patient-set subject f). The source
81
- complex `int16` samples were repackaged to `float32` I/Q with I and Q on the
82
- final channel axis (`n_ch = 2`); values are otherwise verbatim. Each file carries
83
- `metadata/subject/{id,type=human}`, `metadata/credit`, and
84
- `metadata/annotations/{anatomy=cardiac, label=in vivo, view=apical four-chamber (A4C)}`. Probe
85
- model (`probe.name = GE 3Sc-RS`) and scanner (`us_machine = GE Vivid S70`) are
86
- stored too.
87
 
88
  ## Dataset Quantification
89
 
90
  **Current OpenH-RF release:** 25 HDF5 files; 14.99 GB (14,992,998,400 bytes) stored; root `zea_version` **0.1.4**. Sizes include all HDF5 contents and use decimal units (MB = 10^6 bytes, GB = 10^9 bytes, TB = 10^12 bytes), not decoded-array memory or original-source download sizes.
91
 
92
  - **Frames / cines / subjects:** 777 frames · 25 cine loops · 6 subjects (a–f).
93
- - **Train / val / test split:** N/A (contributor to define; the `f2` patient set
94
- is a natural held-out cine).
95
  - **Stored HDF5 size:** 14.99 GB (14,992,998,400 bytes).
96
 
97
  | Field | Shape | dtype | Units | Description |
@@ -107,47 +95,23 @@ stored too.
107
 
108
  ## Subject Metadata
109
 
110
- Six subjects (a–e main set, f patient set), 777 frames across 25 cine loops.
111
- In-vivo human; no PHI stored (only `subject.id` a1…f2, `subject.type = human`,
112
- `anatomy = cardiac`, `view = apical four-chamber (A4C)`). Age and sex were not recorded for these
113
- acquisitions.
114
 
115
  ## Data Validation
116
 
117
- `reconstruct.py` reconstructs a B-mode from `raw_data` using the `zea.Pipeline`
118
- defined in `pipeline.yaml`: delay-and-sum on a polar scanline grid (one image line
119
- per acquisition line, receive dynamic focusing) → envelope detection →
120
- normalization → log compression → sector scan conversion. Run:
121
-
122
- ```
123
- python reconstruct.py
124
- ```
125
 
126
- Reference output: `bmode.png` — frame 8 of `data/c1.hdf5` (in `assets/`). Each
127
- frame is also paired with its conventional delay-and-sum reconstruction in
128
- `beamformed_data` (the target for the raw→image learning task) — note its depth
129
- scale is approximate because the acquisition axial rate is not stored (see Known
130
- Issues).
131
 
132
  ## Known Issues
133
 
134
- - **Axial sample rate not stored.** The consolidated source `.mat` files do not
135
- carry the acquisition header, so `sampling_frequency` (6.0 MHz) is a best
136
- estimate and the reconstructed depth scale is approximate. This applies both to
137
- the raw→image reconstruction and to the paired `beamformed_data` target (exact
138
- in value, approximate in depth axis).
139
- - **Sector-angle convention.** Lines are stored as ±37.5° centred about
140
- boresight, the physically correct convention for a phased array.
141
 
142
  ## Ethical Considerations
143
 
144
- **Privacy safeguards (HIPAA and GDPR).** Pre-beamformed RF channel data contains
145
- no facial or otherwise identifying imagery. All records are de-identified to the
146
- HIPAA Safe Harbor standard, with direct identifiers removed and any dates
147
- generalized to bands. As an EU institution we additionally comply with GDPR,
148
- holding any pseudonymized subject identifiers separately on access-controlled
149
- storage and never sharing them. The released data are de-identified and contain
150
- only the channel signals and acquisition metadata.
151
 
152
- **Ethics.** The data were collected under ethical best practices on healthy
153
- volunteers.
 
1
  ---
2
+ name: technion-cardiac
3
+ pretty_name: "Technion Cardiac Pre-Beamformed Channel Data"
4
  license: cc-by-4.0
5
  task_categories:
6
  - image-to-image
 
17
  - n<1K
18
  ---
19
 
20
+ # Technion Cardiac Pre-beamformed RF Channel Data (paired with DAS targets)
21
 
22
  ![Apical four-chamber view, one 32-frame cardiac cine loop](assets/cine.gif)
23
 
24
+ *Apical four-chamber view: one cine loop (32 frames) from [`data/c1.hdf5`](https://huggingface.co/datasets/nvidia/OpenH-RF/blob/main/technion/cardiac/data/c1.hdf5).*
 
 
 
 
 
 
 
 
 
 
25
 
26
  ## Dataset Description
27
 
28
+ Real, **in-vivo human** pre-beamformed ultrasound **channel data** for cardiac imaging: per-element I/Q recorded before receive beamforming on a 64-element phased array — a sector scan of 140 transmit beams steered over ±37.5°, one image line per transmit (steering angles in `scan.polar_angles`). Each frame is **paired with its conventional delay-and-sum reconstruction** (stored as `beamformed_data`), making this a ready-made input→target set for learned reconstruction / beamforming. 777 frames across 25 cine loops from six subjects (a–f).
 
 
 
 
 
 
29
 
30
  ## Dataset Contributor(s)
31
 
32
+ - Sanketh Vedula <sanketh@campus.technion.ac.il> (primary contact)
33
+ - Ortal Senouf
34
+ - Dean Zadok
35
+ - Alex M. Bronstein (PI)
36
+ - Technion – Israel Institute of Technology
37
 
38
  ## Dataset Creation Date
39
 
 
41
 
42
  ## License / Terms of Use
43
 
44
+ [Creative Commons Attribution 4.0 International (CC BY 4.0)](https://creativecommons.org/licenses/by/4.0/legalcode.en). Retain attribution and identify modifications when reusing the data.
 
45
 
46
  ## Intended Usage
47
 
48
+ Primary: **generalized reconstruction** (§6.1) — learning to map raw per-element channel data to a focused image (learned receive/transmit beamforming, super-resolution, clutter suppression), trained and evaluated against the paired delay-and-sum target. Secondary: motion estimation across the cardiac cine loops (§6.4) and anatomy/cohort interpretation (§6.5).
 
 
 
 
49
 
50
  ## Dataset Characterization
51
 
52
+ - **Data Collection Method:** in-vivo human (research platform) — GE Vivid S70 scanner with raw per-element channel access.
53
+ - **Labeling Method:** derived ground truth — the paired `beamformed_data` is the conventional delay-and-sum reconstruction of each frame.
54
+ - **Acquisition system:** GE Vivid S70 scanner; GE 3Sc-RS 64-element phased-array probe, 0.30 mm pitch; sector scan, 140 acquisition lines over a ~75° sector (±37.5°); 2.5 MHz transmit; apical four-chamber view (A4C).
55
+
56
+ ## Processing the Dataset
57
+
58
+ The acquisitions can be processed with the `pipeline.yaml` definition in this folder and the [zea library](https://github.com/tue-bmd/zea).
59
+
60
+ `zea` streams the data from the Hugging Face Hub and processes it according to the pipeline. You can try it out with the following command:
61
+
62
+ ```bash
63
+ zea process \
64
+ --dataset hf://nvidia/OpenH-RF/technion/cardiac/data/c1.hdf5 \
65
+ --config hf://nvidia/OpenH-RF/technion/cardiac/pipeline.yaml \
66
+ --n-frames 32
67
+ ```
68
+
69
+ Alternatively, you can use the `reconstruct.py` [script](https://github.com/open-h/OpenH-RF/blob/main/datasets/technion/cardiac/reconstruct.py) as provided in the [OpenH-RF GitHub repository](https://github.com/open-h/OpenH-RF).
70
 
71
  ## Dataset Format
72
 
73
+ [zea v0.1.4](https://github.com/tue-bmd/zea)
74
+
75
+ zea file format, one HDF5 file per cine loop (`data/<subject><clip>.hdf5`, e.g. `a1.hdf5` = subject a, clip 1; `f2.hdf5` = patient-set subject f). The source complex `int16` samples were repackaged to `float32` I/Q with I and Q on the final channel axis (`n_ch = 2`); values are otherwise verbatim. Each file carries `metadata/subject/{id,type=human}`, `metadata/credit`, and `metadata/annotations/{anatomy=cardiac, label=in vivo, view=apical four-chamber (A4C)}`. Probe model (`probe.name = GE 3Sc-RS`) and scanner (`us_machine = GE Vivid S70`) are stored too.
 
 
 
 
 
76
 
77
  ## Dataset Quantification
78
 
79
  **Current OpenH-RF release:** 25 HDF5 files; 14.99 GB (14,992,998,400 bytes) stored; root `zea_version` **0.1.4**. Sizes include all HDF5 contents and use decimal units (MB = 10^6 bytes, GB = 10^9 bytes, TB = 10^12 bytes), not decoded-array memory or original-source download sizes.
80
 
81
  - **Frames / cines / subjects:** 777 frames · 25 cine loops · 6 subjects (a–f).
82
+ - **Train / val / test split:** N/A (contributor to define; the `f2` patient set is a natural held-out cine).
 
83
  - **Stored HDF5 size:** 14.99 GB (14,992,998,400 bytes).
84
 
85
  | Field | Shape | dtype | Units | Description |
 
95
 
96
  ## Subject Metadata
97
 
98
+ Six subjects (a–e main set, f patient set), 777 frames across 25 cine loops. In-vivo human; no PHI stored (only `subject.id` a1…f2, `subject.type = human`, `anatomy = cardiac`, `view = apical four-chamber (A4C)`). Age and sex were not recorded for these acquisitions.
 
 
 
99
 
100
  ## Data Validation
101
 
102
+ `reconstruct.py` reconstructs a B-mode from `raw_data` using the `zea.Pipeline` defined in `pipeline.yaml`: delay-and-sum on a polar scanline grid (one image line per acquisition line, receive dynamic focusing) → envelope detection → normalization → log compression → sector scan conversion.
 
 
 
 
 
 
 
103
 
104
+ Reference output: `bmode.png` — frame 8 of `data/c1.hdf5` (in `assets/`). Each frame is also paired with its conventional delay-and-sum reconstruction in `beamformed_data` (the target for the raw→image learning task) — note its depth scale is approximate because the acquisition axial rate is not stored (see Known Issues).
 
 
 
 
105
 
106
  ## Known Issues
107
 
108
+ - **Axial sample rate not stored.** The consolidated source `.mat` files do not carry the acquisition header, so `sampling_frequency` (6.0 MHz) is a best estimate and the reconstructed depth scale is approximate. This applies both to the raw→image reconstruction and to the paired `beamformed_data` target (exact in value, approximate in depth axis).
109
+ - **Sector-angle convention.** Lines are stored as ±37.5° centred about boresight, the physically correct convention for a phased array.
 
 
 
 
 
110
 
111
  ## Ethical Considerations
112
 
113
+ **Privacy safeguards (HIPAA and GDPR).** Pre-beamformed RF channel data contains no facial or otherwise identifying imagery. All records are de-identified to the HIPAA Safe Harbor standard, with direct identifiers removed and any dates generalized to bands. As an EU institution we additionally comply with GDPR, holding any pseudonymized subject identifiers separately on access-controlled storage and never sharing them. The released data are de-identified and contain only the channel signals and acquisition metadata.
114
+
115
+ **Ethics.** The data were collected under ethical best practices on healthy volunteers.
 
 
 
 
116
 
117
+ The data is the contributors' own research acquisition, cleared for CC BY 4.0 with no third-party IP encumbrances.
 
technion/phantom/README.md CHANGED
@@ -1,5 +1,6 @@
1
  ---
2
- pretty_name: "OpenH-RF — Technion Phantom Pre-Beamformed Channel Data"
 
3
  license: cc-by-4.0
4
  task_categories:
5
  - image-to-image
@@ -16,36 +17,23 @@ size_categories:
16
  - n<1K
17
  ---
18
 
19
- # OpenH-RF — Tissue-mimicking phantom pre-beamformed RF channel data
20
 
21
  ![Tissue-mimicking phantom with point targets and an anechoic cyst](assets/bmode.png)
22
 
23
- Frame 6 of [`data/ph.hdf5`](https://huggingface.co/datasets/nvidia/OpenH-RF/blob/main/technion/phantom/data/ph.hdf5), reconstructed by
24
- `reconstruct.py`.
25
-
26
- `zea` renders it straight from the Hub with the
27
- `pipeline.yaml` in this folder. Try it out with the following command:
28
-
29
- ```bash
30
- zea process \
31
- --dataset hf://nvidia/OpenH-RF/technion/phantom/data/ph.hdf5 \
32
- --config hf://nvidia/OpenH-RF/technion/phantom/pipeline.yaml \
33
- --n-frames 1
34
- ```
35
 
36
  ## Dataset Description
37
 
38
- Pre-beamformed ultrasound **channel data** from a tissue-mimicking phantom,
39
- acquired on the same 64-element phased-array sector scheme as the in-vivo
40
- collection (180 transmit beams steered over ±45.13°, one image line per
41
- transmit), for **calibration and verification**. Contains
42
- resolvable point targets and an anechoic cyst — a clean reference for validating
43
- beamforming and reconstruction. 12 frames, one acquisition.
44
 
45
  ## Dataset Contributor(s)
46
 
47
- Sanketh Vedula, Ortal Senouf, Dean Zadok, Alex M. Bronstein (PI) —
48
- Technion – Israel Institute of Technology. Primary contact: sanketh@campus.technion.ac.il.
 
 
 
49
 
50
  ## Dataset Creation Date
51
 
@@ -53,30 +41,38 @@ Source data 2018; converted to the OpenH-RF (zea) format 07/16/2026.
53
 
54
  ## License / Terms of Use
55
 
56
- CC BY 4.0 (proposal §8).
57
 
58
  ## Intended Usage
59
 
60
- Calibration and end-to-end verification of the beamforming/reconstruction
61
- pipeline (point-target resolution, cyst contrast). Phantom tier (×1).
62
 
63
  ## Dataset Characterization
64
 
65
- - **Data Collection Method:** phantom — tissue-mimicking phantom (Gammex 403GS LE,
66
- Gammex Inc., Middleton, WI, USA), acquired on the same scanner/probe as the
67
- in-vivo collection for calibration.
68
  - **Labeling Method:** N/A (calibration target; known phantom geometry).
69
- - **Acquisition system:** GE Vivid S70 scanner; GE 3Sc-RS 64-element phased-array
70
- probe, 0.30 mm pitch; sector scan, 180 transmit beams steered over ±45.13°
71
- (≈90.25° FOV), one image line per transmit; IQ demodulated at 3.44 MHz.
 
 
 
 
 
 
 
 
 
 
 
 
 
72
 
73
  ## Dataset Format
74
 
75
- zea file format, a single HDF5 file `data/ph.hdf5`. Source complex samples
76
- repackaged to `float32` I/Q (`n_ch = 2`), values verbatim. Carries
77
- `metadata/subject/{id=ph, type=phantom}`, `metadata/credit`, probe model
78
- (`probe.name = GE 3Sc-RS`) and scanner (`us_machine = GE Vivid S70`). ("phantom"
79
- is recorded only as `subject.type`, not as an anatomy or label.)
80
 
81
  ## Dataset Quantification
82
 
@@ -100,21 +96,13 @@ N/A — inanimate phantom (GAMMEX 403GS LE); `subject.type = phantom`.
100
 
101
  ## Data Validation
102
 
103
- `reconstruct.py` reconstructs a B-mode from `raw_data` using the `zea.Pipeline`
104
- in `pipeline.yaml` (delay-and-sum on a polar scanline grid → envelope →
105
- normalization → log compression → sector scan conversion). Run:
106
-
107
- ```
108
- python reconstruct.py
109
- ```
110
 
111
- Reference output: `bmode.png` — frame 6 of `data/ph.hdf5`, shown above:
112
- resolvable point targets and a well-defined anechoic cyst at ~65 mm.
113
 
114
  ## Known Issues
115
 
116
- - Same scan scheme and probe as the in-vivo bladder collection (GE
117
- tissue-harmonic); acquired as its calibration reference. GAMMEX 403GS LE.
118
 
119
  ## Ethical Considerations
120
 
 
1
  ---
2
+ name: technion-phantom
3
+ pretty_name: "Technion Phantom Pre-Beamformed Channel Data"
4
  license: cc-by-4.0
5
  task_categories:
6
  - image-to-image
 
17
  - n<1K
18
  ---
19
 
20
+ # Technion Tissue-mimicking Phantom Pre-beamformed RF Channel Data
21
 
22
  ![Tissue-mimicking phantom with point targets and an anechoic cyst](assets/bmode.png)
23
 
24
+ *Frame 6 of [`data/ph.hdf5`](https://huggingface.co/datasets/nvidia/OpenH-RF/blob/main/technion/phantom/data/ph.hdf5), reconstructed by `reconstruct.py`.*
 
 
 
 
 
 
 
 
 
 
 
25
 
26
  ## Dataset Description
27
 
28
+ Pre-beamformed ultrasound **channel data** from a tissue-mimicking phantom, acquired on the same 64-element phased-array sector scheme as the in-vivo collection (180 transmit beams steered over ±45.13°, one image line per transmit), for **calibration and verification**. Contains resolvable point targets and an anechoic cyst — a clean reference for validating beamforming and reconstruction. 12 frames, one acquisition.
 
 
 
 
 
29
 
30
  ## Dataset Contributor(s)
31
 
32
+ - Sanketh Vedula <sanketh@campus.technion.ac.il> (primary contact)
33
+ - Ortal Senouf
34
+ - Dean Zadok
35
+ - Alex M. Bronstein (PI)
36
+ - Technion – Israel Institute of Technology
37
 
38
  ## Dataset Creation Date
39
 
 
41
 
42
  ## License / Terms of Use
43
 
44
+ [Creative Commons Attribution 4.0 International (CC BY 4.0)](https://creativecommons.org/licenses/by/4.0/legalcode.en). Retain attribution and identify modifications when reusing the data.
45
 
46
  ## Intended Usage
47
 
48
+ Calibration and end-to-end verification of the beamforming/reconstruction pipeline (point-target resolution, cyst contrast). Phantom tier (×1).
 
49
 
50
  ## Dataset Characterization
51
 
52
+ - **Data Collection Method:** phantom — tissue-mimicking phantom (Gammex 403GS LE, Gammex Inc., Middleton, WI, USA), acquired on the same scanner/probe as the in-vivo collection for calibration.
 
 
53
  - **Labeling Method:** N/A (calibration target; known phantom geometry).
54
+ - **Acquisition system:** GE Vivid S70 scanner; GE 3Sc-RS 64-element phased-array probe, 0.30 mm pitch; sector scan, 180 transmit beams steered over ±45.13° (≈90.25° FOV), one image line per transmit; IQ demodulated at 3.44 MHz.
55
+
56
+ ## Processing the Dataset
57
+
58
+ The acquisitions can be processed with the `pipeline.yaml` definition in this folder and the [zea library](https://github.com/tue-bmd/zea).
59
+
60
+ `zea` streams the data from the Hugging Face Hub and processes it according to the pipeline. You can try it out with the following command:
61
+
62
+ ```bash
63
+ zea process \
64
+ --dataset hf://nvidia/OpenH-RF/technion/phantom/data/ph.hdf5 \
65
+ --config hf://nvidia/OpenH-RF/technion/phantom/pipeline.yaml \
66
+ --n-frames 1
67
+ ```
68
+
69
+ Alternatively, you can use the `reconstruct.py` [script](https://github.com/open-h/OpenH-RF/blob/main/datasets/technion/phantom/reconstruct.py) as provided in the [OpenH-RF GitHub repository](https://github.com/open-h/OpenH-RF).
70
 
71
  ## Dataset Format
72
 
73
+ [zea v0.1.4](https://github.com/tue-bmd/zea)
74
+
75
+ zea file format, a single HDF5 file `data/ph.hdf5`. Source complex samples repackaged to `float32` I/Q (`n_ch = 2`), values verbatim. Carries `metadata/subject/{id=ph, type=phantom}`, `metadata/credit`, probe model (`probe.name = GE 3Sc-RS`) and scanner (`us_machine = GE Vivid S70`). ("phantom" is recorded only as `subject.type`, not as an anatomy or label.)
 
 
76
 
77
  ## Dataset Quantification
78
 
 
96
 
97
  ## Data Validation
98
 
99
+ `reconstruct.py` reconstructs a B-mode from `raw_data` using the `zea.Pipeline` in `pipeline.yaml` (delay-and-sum on a polar scanline grid → envelope → normalization → log compression → sector scan conversion).
 
 
 
 
 
 
100
 
101
+ Reference output: `bmode.png` — frame 6 of `data/ph.hdf5`, shown above: resolvable point targets and a well-defined anechoic cyst at ~65 mm.
 
102
 
103
  ## Known Issues
104
 
105
+ - Same scan scheme and probe as the in-vivo bladder collection (GE tissue-harmonic); acquired as its calibration reference. GAMMEX 403GS LE.
 
106
 
107
  ## Ethical Considerations
108