RyoMurakami/OpenH-RF-eSAF-raw

OpenH-RF eSAF — Raw Source Data Archive

This is a provenance/reproducibility archive — not itself the OpenH-RF submission. The submitted dataset (195 zea-format .hdf5 acquisitions + data card

• reconstruction pipeline) is at https://huggingface.co/datasets/RyoMurakami/OpenH-RF-eSAF. This archive preserves the raw, upstream acquisition/simulation outputs that were converted into that packaged submission — released under the same CC BY 4.0 license (see LICENSE).

Code and full documentation for how this raw data was collected and processed live in the GitHub repo RyoMurakami-MedRobo/OpenH-RF-eSAF (experiment/, sim/, matlab/saf/).

What's here

File	Contents
raw/experiment_10mm.zip	Raw Verasonics per-line channel-RF capture (RFdata_line*.mat, one file per acquired line) for the 10 mm nominal-depth measured phantom scan, plus acq_meta.mat, acq_log.mat, EncoderInfo/ (motor angle log), and working QC files from this scan folder (depth-identification figures, intermediate eSAF .mat/.png). This is the data before time-tag frame-to-angle synchronization and before centre-plane-wave extraction — i.e. upstream of experiment/sync_channel_rf.m, which produces the packaged single-plane-wave-per-angle raw channel data delivered in the public submission as data/experiment__acq_exp_10mm.hdf5.
raw/experiment_20mm.zip / _30mm / _40mm / _45mm	Same, for the 20/30/40/45 mm nominal-depth measured scans (source: 20260617/scan_data_JP_US_Angle_3D_<depth>mm/ on lab storage).
raw/sim_dataset_out.zip	Per-case MATLAB .mat + reference .png for all 190 simulated (probe × target) cases from sim/batch_sim_probe_target.m: raw per-element channel RF, the in-plane DAS beamformed result, full metadata, and the eSAF-reconstructed output (safrot_backproj), plus the dataset_overview_r4.png FWHM-vs-depth summary. This is the MATLAB-side counterpart of the zea .hdf5 files delivered in the public submission.

Why this archive exists

The public submission ships the already-converted, packaged zea .hdf5 format (raw channel RF + scan metadata + paired SAF-volume label) needed by OpenH-RF. This archive preserves the raw, upstream acquisition/simulation outputs that were converted into that packaged form, in case of a need to re-derive, re-verify, or re-process from source (different frame-to-angle sync window, different plane-wave selection, alternate SAF parameters, etc.) beyond what the packaged form supports.

Reproducing the packaged data from this archive

1. Simulated: sim/mat_to_zea.py or sim/sim_dataset_to_zea.py converts the sim_dataset_out/<probe>/<target>.mat files here into the zea data/*.hdf5 format in the public submission.
2. Measured: experiment/sync_channel_rf.m reads the raw per-line RFdata_line*.mat
   • EncoderInfo/ here, performs time-tag frame→angle synchronization and centre-plane-wave extraction, and writes the packaged channel-RF used by sim/sim_dataset_to_zea.py to produce data/experiment__acq_exp_<depth>mm.hdf5.

Known caveats

• Not all raw acquisitions collected during this project are archived here — only the ones that back the 5 measured acquisitions actually delivered in the public submission (10/20/30/40/45 mm). Earlier troubleshooting captures (50–130 mm and several re-acquisition variants used to diagnose a depth-dependent eSAF focus issue) are not included; they remain on lab storage if needed later.
• Zips use standard DEFLATE compression (zip -9); raw ultrasound RF data compresses modestly (~45–55% of original size), not dramatically — it isn't incompressible, but don't expect an order-of-magnitude reduction.