Module bio 

Biology / microscopy / medical vision vertical (D7).

• morphology — OD index, top-hat, watershed / Voronoi-Otsu labels, nucleus features
• histopathology — stain OD, Reinhard, Macenko, background correct, SNMF-lite
• radiomics — first-order, GLCM, shape lite
• tracking — Crocker–Grier particle link + centroids from blobs
• medical — HU window, MIP, isotropic resample, spectral unmix NNLS
• dicom_lite — partial LE-explicit tags, PHI redact, SUV formula

Clinical-adjacent outputs are non-diagnosis proposals; PHI/DICOM paths fail closed under sensitivity / Wellfair policy (see bio-medical CV catalogue).

Re-exports

pub use dicom_lite::anonymize_tag_map;

pub use dicom_lite::anonymize_tag_map;

pub use dicom_lite::parse_dicom_tags_basic;

pub use dicom_lite::parse_dicom_tags_basic;

pub use dicom_lite::suv_bw;

pub use dicom_lite::suv_from_activity;

pub use dicom_lite::suv_from_activity;

pub use dicom_lite::AnonymizeReport;

pub use dicom_lite::DicomLiteError;

pub use dicom_lite::DicomTagMap;

pub use dicom_lite::ParsedDicomTags;

pub use dicom_lite::PHI_TAG_KEYS;

pub use histopathology::apply_background_correct;

pub use histopathology::background_intensity_sample;

pub use histopathology::lab_to_rgb;

pub use histopathology::macenko_deconvolution;

pub use histopathology::optical_density_rgb;

pub use histopathology::reinhard_normalize;

pub use histopathology::rgb_to_lab;

pub use histopathology::snmf_unmix_lite;

pub use histopathology::HistoError;

pub use histopathology::LabStats;

pub use histopathology::MacenkoResult;

pub use histopathology::RgbBg;

pub use histopathology::StainBasis;

pub use histopathology::DEFAULT_HE_TARGET_MEAN;

pub use histopathology::DEFAULT_HE_TARGET_STD;

pub use medical::apply_hu_window_f32;

pub use medical::apply_hu_window_i16;

pub use medical::hu_window_i16;

pub use medical::isotropic_resample_2d_nn;

pub use medical::isotropic_resample_3d_nn;

pub use medical::isotropic_resample_nn_2d;

pub use medical::mip_project_axis;

pub use medical::mip_project_z;

pub use medical::spectral_unmix_nnls;

pub use medical::spectral_unmix_nnls;

pub use medical::spectral_unmix_roi_mean;

pub use medical::MedicalError;

pub use medical::MipAxis;

pub use medical::UnmixResult;

pub use morphology::extended_minima;

pub use morphology::extended_minima;

pub use morphology::intensity_to_od_u8;

pub use morphology::morphological_tophat;

pub use morphology::morphological_tophat;

pub use morphology::nucleus_features;

pub use morphology::nucleus_features;

pub use morphology::otsu_threshold_from_hist;

pub use morphology::positive_od_threshold;

pub use morphology::positive_od_threshold;

pub use morphology::voronoi_otsu_label;

pub use morphology::voronoi_otsu_label;

pub use morphology::watershed_markers;

pub use morphology::watershed_markers;

pub use morphology::NucleusFeature;

pub use morphology::OdPositiveIndex;

pub use morphology::TopHatKind;

pub use morphology::MAX_NUCLEUS_LABELS;

pub use morphology::MAX_OD_LABELS;

pub use radiomics::first_order_stats;

pub use radiomics::first_order_stats;

pub use radiomics::glcm_features;

pub use radiomics::glcm_features;

pub use radiomics::glcm_features_d1;

pub use radiomics::shape_2d_features;

pub use radiomics::shape_2d_from_mask;

pub use radiomics::shape_3d_from_voxels;

pub use radiomics::FirstOrderStats;

pub use radiomics::GlcmFeatures;

pub use radiomics::RadiomicsError;

pub use radiomics::Shape2d;

pub use radiomics::Shape2dFeatures;

pub use radiomics::Shape3dFeatures;

pub use radiomics::GLCM_LEVELS_16;

pub use radiomics::GLCM_LEVELS_32;

pub use tracking::centroid_from_bbox;

pub use tracking::centroids_from_binary;

pub use tracking::centroids_from_labels;

pub use tracking::crocker_grier_link;

pub use tracking::crocker_grier_link;

pub use tracking::link_particles;

pub use tracking::CrockerGrierLinker;

pub use tracking::CrockerGrierParams;

pub use tracking::Detection2;

pub use tracking::LinkedParticle;

pub use tracking::ParticleCentroid;

pub use tracking::TrackLink;

pub use tracking::MAX_FRAME_DETS;

pub use tracking::MAX_PARTICLES_PER_FRAME;

pub use tracking::MAX_PARTICLE_TRACKS;

pub use tracking::NO_TRACK_ID;

Modules

dicom_lite

Honest partial DICOM helpers — not a full pydicom replacement.

histopathology

Histopathology color / stain algorithms (pure Rust, caller-buffered).

medical

Medical volume helpers (pure Rust).

morphology

Native pure-Rust morphology / cell-detection kernels.

radiomics

Radiomics feature extractors (pure Rust).

tracking

Particle tracking: Crocker–Grier linking + centroid extraction.