.gitignore
LICENSE
README.md
pyproject.toml
setup.cfg
.github/workflows/deploy.yml
docs/generate_readme.py
stemia/__init__.py
stemia/_version.py
stemia.egg-info/PKG-INFO
stemia.egg-info/SOURCES.txt
stemia.egg-info/dependency_links.txt
stemia.egg-info/entry_points.txt
stemia.egg-info/not-zip-safe
stemia.egg-info/requires.txt
stemia.egg-info/top_level.txt
stemia/aretomo/__init__.py
stemia/aretomo/aln2xf.py
stemia/aretomo/batch.sh
stemia/aretomo/batch_warp/__init__.py
stemia/aretomo/batch_warp/aretomo.py
stemia/aretomo/batch_warp/fix.py
stemia/aretomo/batch_warp/fix_mdoc.py
stemia/aretomo/batch_warp/main.py
stemia/aretomo/batch_warp/parse.py
stemia/aretomo/batch_warp/stack.py
stemia/aretomo/batch_warp/threaded.py
stemia/aretomo/batch_warp/topaz.py
stemia/cryosparc/__init__.py
stemia/cryosparc/fix_filament_ids.py
stemia/cryosparc/generate_tilt_angles.py
stemia/cryosparc/merge_defects_gainref.py
stemia/cryosparc/csplot/__init__.py
stemia/cryosparc/csplot/main.py
stemia/cryosparc/csplot/parse.py
stemia/cryosparc/csplot/plot.py
stemia/image/__init__.py
stemia/image/create_mask.py
stemia/image/extract_z_snapshots.py
stemia/image/flip_z.py
stemia/image/fourier_crop.py
stemia/image/rescale.py
stemia/image/center_filament/__init__.py
stemia/image/center_filament/center_filament.py
stemia/image/center_filament/funcs.py
stemia/imod/__init__.py
stemia/imod/find_NAD_params.py
stemia/relion/__init__.py
stemia/relion/align_filament_particles.py
stemia/utils/__init__.py
stemia/utils/click.py
stemia/utils/image_processing.py
stemia/utils/io_.py
stemia/warp/__init__.py
stemia/warp/fix_mdoc.py
stemia/warp/offset_angle.py
stemia/warp/parse_xml.py
stemia/warp/prepare_isonet.py
stemia/warp/preprocess_serialem.sh
stemia/warp/spoof_mdoc.py
stemia/warp/summarize.py