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GitHub / Haas-Lab / Label_Seg_Program
Repository is created to organize the development of a ground-truth volume labeling program.
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/Haas-Lab%2FLabel_Seg_Program
Stars: 0
Forks: 0
Open Issues: 0
License: None
Language: Jupyter Notebook
Repo Size: 478 MB
Dependencies:
400
Created: almost 3 years ago
Updated: about 2 months ago
Last pushed: 10 months ago
Last synced: about 2 months ago
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Dependencies
requirements.txt
pypi
- PyYAML *
- aicsimageio *
- gdown *
- h5py *
- magicgui *
- monai *
- napari *
- numpy *
- onnxruntime *
- patchify *
- pytorch *
- scikit-image *
- scikit-learn *
- scipy *
- tifffile *
- torchio *
- torchvision *
- tqdm *
requirements_m1.txt
pypi
- abseil-cpp =20211102.0=h6b3803e_1
- absl-py =1.1.0=pyhd8ed1ab_0
- aicsimageio =4.9.2=pypi_0
- aiohttp =3.8.1=py39hb18efdd_1
- aiohttp-cors =0.7.0=pypi_0
- aiorwlock =1.3.0=pypi_0
- aiosignal =1.2.0=pyhd8ed1ab_0
- alabaster =0.7.12=py_0
- anyio =3.6.1=pypi_0
- aom =3.3.0=h07bb92c_1
- appdirs =1.4.4=pyh9f0ad1d_0
- appnope =0.1.3=pyhd8ed1ab_0
- argon2-cffi =21.3.0=pyhd8ed1ab_0
- argon2-cffi-bindings =21.2.0=py39hb18efdd_2
- asciitree =0.3.3=py_2
- asgiref =3.5.2=pypi_0
- asttokens =2.0.5=pyhd8ed1ab_0
- astunparse =1.6.3=pypi_0
- async-timeout =4.0.2=pyhd8ed1ab_0
- attrs =21.4.0=pyhd8ed1ab_0
- babel =2.10.3=pyhd8ed1ab_0
- backcall =0.2.0=pyh9f0ad1d_0
- backports =1.0=py_2
- backports.functools_lru_cache =1.6.4=pyhd8ed1ab_0
- bayesian-optimization =1.2.0=pypi_0
- beautifulsoup4 =4.11.1=pyha770c72_0
- bleach =5.0.0=pyhd8ed1ab_0
- blessed =1.19.1=pypi_0
- blinker =1.4=py_1
- blosc =1.21.1=hd414afc_3
- bokeh =2.4.3=py39h2804cbe_0
- brotli =1.0.9=h1c322ee_7
- brotli-bin =1.0.9=h1c322ee_7
- brotlipy =0.7.0=py39hb18efdd_1004
- brunsli =0.1=h9f76cd9_0
- bzip2 =1.0.8=h3422bc3_4
- c-ares =1.18.1=h3422bc3_0
- c-blosc2 =2.1.1=h10ebec7_2
- ca-certificates =2022.12.7=h4653dfc_0
- cached-property =1.5.2=hd8ed1ab_1
- cached_property =1.5.2=pyha770c72_1
- cachetools =5.2.0=pypi_0
- cachey =0.2.1=pyh9f0ad1d_0
- certifi =2022.6.15=pypi_0
- cffi =1.15.0=py39h52b1de0_0
- cfitsio =4.1.0=hd4f5c17_0
- charls =2.3.4=hbdafb3b_0
- charset-normalizer =2.0.12=pyhd8ed1ab_0
- click =8.0.4=pypi_0
- cloudpickle =2.1.0=pyhd8ed1ab_0
- colorama =0.4.5=pyhd8ed1ab_0
- coloredlogs =15.0.1=pyhd8ed1ab_3
- colorful =0.5.4=pypi_0
- cryptography =37.0.2=py39h4cb6239_0
- cycler =0.11.0=pypi_0
- cytoolz =0.11.2=py39hb18efdd_2
- dask =2022.6.0=pyhd8ed1ab_0
- dask-core =2022.6.0=pyhd8ed1ab_0
- debugpy =1.6.0=py39h0ef5a74_0
- decorator =5.1.1=pyhd8ed1ab_0
- defusedxml =0.7.1=pyhd8ed1ab_0
- deprecated =1.2.13=pypi_0
- distlib =0.3.5=pypi_0
- distributed =2022.6.0=pyhd8ed1ab_0
- dm-tree =0.1.7=pypi_0
- dnspython =2.2.1=pypi_0
- docstring_parser =0.13=pyhd8ed1ab_0
- docutils =0.18.1=py39h2804cbe_1
- elementpath =2.5.3=pypi_0
- email-validator =1.3.0=pypi_0
- entrypoints =0.4=pyhd8ed1ab_0
- et_xmlfile =1.1.0=pyhd8ed1ab_0
- executing =0.8.3=pyhd8ed1ab_0
- expat =2.4.8=h6b3803e_0
- fastapi =0.83.0=pypi_0
- fasteners =0.17.3=pyhd8ed1ab_0
- filelock =3.8.0=pypi_0
- flatbuffers =1.12=pypi_0
- flit-core =3.7.1=pyhd8ed1ab_0
- font-ttf-dejavu-sans-mono =2.37=hab24e00_0
- font-ttf-inconsolata =3.000=h77eed37_0
- font-ttf-source-code-pro =2.038=h77eed37_0
- font-ttf-ubuntu =0.83=hab24e00_0
- fontconfig =2.14.0=hfb34624_0
- fonts-conda-ecosystem =1=0
- fonts-conda-forge =1=0
- fonttools =4.33.3=pypi_0
- freetype =2.10.4=h17b34a0_1
- freetype-py =2.3.0=pyhd8ed1ab_0
- frozenlist =1.3.0=py39hb18efdd_1
- fsspec =2022.5.0=pyhd8ed1ab_0
- future =0.18.2=py39h2804cbe_5
- gast =0.4.0=pypi_0
- gettext =0.19.8.1=h049c9fb_1008
- giflib =5.2.1=h27ca646_2
- glib =2.70.2=hccf11d3_4
- glib-tools =2.70.2=hccf11d3_4
- gmp =6.2.1=h9f76cd9_0
- gmpy2 =2.1.2=py39h6e385ed_0
- google-api-core =2.10.0=pypi_0
- google-auth =2.8.0=pypi_0
- google-auth-oauthlib =0.4.6=pyhd8ed1ab_0
- google-pasta =0.2.0=pypi_0
- googleapis-common-protos =1.56.4=pypi_0
- gpustat =1.0.0=pypi_0
- grpc-cpp =1.47.1=h7d90225_0
- grpcio =1.43.0=pypi_0
- gst-plugins-base =1.20.3=hbf05cfb_0
- gstreamer =1.20.3=h3d5cedb_0
- gym =0.21.0=pypi_0
- h11 =0.13.0=pypi_0
- h5py =3.6.0=nompi_py39hd982b79_100
- hdf5 =1.12.1=nompi_hf9525e8_104
- heapdict =1.0.1=py_0
- hsluv =5.0.2=pyh44b312d_0
- humanfriendly =10.0=py39h2804cbe_2
- humanize =4.2.1=pypi_0
- icu =70.1=h6b3803e_0
- idna =3.3=pyhd8ed1ab_0
- ignite =0.4.9=py_0
- imagecodecs =2022.2.22=py39h661bc3f_6
- imageio =2.19.3=pyhcf75d05_0
- imagesize =1.3.0=pyhd8ed1ab_0
- importlib-metadata =4.11.4=py39h2804cbe_0
- importlib_resources =5.8.0=pyhd8ed1ab_0
- ipykernel =6.15.0=pyh736e0ef_0
- ipython =8.4.0=py39h2804cbe_0
- ipython_genutils =0.2.0=py_1
- jedi =0.18.1=py39h2804cbe_1
- jinja2 =3.0.3=pyhd8ed1ab_0
- joblib =1.1.0=pyhd8ed1ab_0
- jpeg =9e=h1c322ee_1
- json5 =0.9.5=pyh9f0ad1d_0
- jsonschema =4.6.0=pyhd8ed1ab_0
- jupyter_client =7.3.4=pyhd8ed1ab_0
- jupyter_core =4.10.0=py39h2804cbe_0
- jupyterlab =2.1.0=py_0
- jupyterlab_pygments =0.2.2=pyhd8ed1ab_0
- jupyterlab_server =1.0.9=py_0
- jxrlib =1.1=h27ca646_2
- keras =2.9.0=pypi_0
- keras-preprocessing =1.1.2=pypi_0
- kiwisolver =1.4.3=py39hab5e169_0
- krb5 =1.19.3=hf9b2bbe_0
- lcms2 =2.12=had6a04f_0
- lerc =3.0=hbdafb3b_0
- libaec =1.0.6=hbdafb3b_0
- libavif =0.10.1=h1c322ee_0
- libblas =3.9.0=15_osxarm64_openblas
- libbrotlicommon =1.0.9=h1c322ee_7
- libbrotlidec =1.0.9=h1c322ee_7
- libbrotlienc =1.0.9=h1c322ee_7
- libcblas =3.9.0=15_osxarm64_openblas
- libclang =14.0.1=pypi_0
- libclang13 =14.0.5=default_he70ec0d_0
- libcurl =7.83.1=h2fcd78c_0
- libcxx =14.0.5=h04bba0f_1
- libdeflate =1.12=he4db4b2_0
- libedit =3.1.20191231=hc8eb9b7_2
- libev =4.33=h642e427_1
- libffi =3.4.2=h3422bc3_5
- libgfortran =5.0.0.dev0=11_0_1_hf114ba7_23
- libgfortran5 =11.0.1.dev0=hf114ba7_23
- libglib =2.70.2=h67e64d8_4
- libiconv =1.16=h642e427_0
- liblapack =3.9.0=15_osxarm64_openblas
- libllvm14 =14.0.5=h37c5ba8_0
- libnghttp2 =1.47.0=he723fca_0
- libogg =1.3.4=h27ca646_1
- libopenblas =0.3.20=openmp_h2209c59_0
- libopus =1.3.1=h27ca646_1
- libpng =1.6.37=hf7e6567_2
- libpq =14.4=h8ab49ba_0
- libprotobuf =3.20.1=h332123e_0
- libsodium =1.0.18=h27ca646_1
- libssh2 =1.10.0=hb80f160_2
- libtiff =4.4.0=hcbbed22_1
- libvorbis =1.3.7=h9f76cd9_0
- libwebp =1.2.2=h0d20362_0
- libwebp-base =1.2.2=h3422bc3_1
- libxcb =1.13=h9b22ae9_1004
- libzlib =1.2.12=ha287fd2_1
- libzopfli =1.0.3=h9f76cd9_0
- light-the-torch =0.4.0=pypi_0
- llvm-openmp =14.0.4=hd125106_0
- locket =1.0.0=pyhd8ed1ab_0
- lxml =4.9.1=pypi_0
- lz4 =4.0.0=py39h049b86e_2
- lz4-c =1.9.3=hbdafb3b_1
- magicgui =0.5.1=pyhd8ed1ab_0
- markdown =3.3.7=pyhd8ed1ab_0
- markupsafe =2.1.1=py39hb18efdd_1
- matplotlib =3.5.2=pypi_0
- matplotlib-inline =0.1.3=pyhd8ed1ab_0
- mistune =0.8.4=py39h5161555_1005
- monai =0.9.0=pyhd8ed1ab_0
- mpc =1.2.1=h309154c_0
- mpfr =4.1.0=h6d7a090_1
- mpmath =1.2.1=pyhd8ed1ab_0
- msgpack-python =1.0.4=py39hab5e169_0
- multidict =6.0.2=py39hb18efdd_1
- mysql-common =8.0.29=haa90c7b_1
- mysql-libs =8.0.29=h0a1dba2_1
- napari =0.4.15=pyh275ddea_1_pyqt
- napari-console =0.0.4=pyhd8ed1ab_1
- napari-plugin-engine =0.2.0=pyhd8ed1ab_2
- napari-svg =0.1.6=pyhd8ed1ab_0
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- nibabel =4.0.1=pypi_0
- ninja =1.11.0=hf86a087_0
- notebook =6.4.12=pyha770c72_0
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- nspr =4.32=hbdafb3b_1
- nss =3.78=h1483a63_0
- numcodecs =0.9.1=py39h6e3512e_3
- numpy =1.22.4=py39h7df2422_0
- numpydoc =1.4.0=pyhd8ed1ab_0
- nvidia-ml-py =11.495.46=pypi_0
- oauthlib =3.2.0=pyhd8ed1ab_0
- ome-types =0.3.1=pypi_0
- onnx =1.12.0=py39hf1f8667_0
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- opencensus =0.11.0=pypi_0
- opencensus-context =0.1.3=pypi_0
- opencv-python =4.6.0.66=pypi_0
- openjpeg =2.4.0=h062765e_1
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- pillow =9.1.1=py39h1b8be2f_1
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- pip =22.1.2=pyhd8ed1ab_0
- platformdirs =2.5.2=pypi_0
- ply =3.11=py_1
- pooch =1.6.0=pyhd8ed1ab_0
- prometheus-client =0.13.1=pypi_0
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- prompt-toolkit =3.0.29=pyha770c72_0
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- py-spy =0.3.14=pypi_0
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- python_abi =3.9=2_cp39
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- pytorch =1.11.0=cpu_py39h03f923b_2
- pytorch-lightning =1.5.8=pyhd8ed1ab_0
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- scipy =1.8.1=py39h14896cb_0
- send2trash =1.8.0=pyhd8ed1ab_0
- setuptools =62.6.0=py39h2804cbe_0
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- simpleitk =2.1.1.2=pypi_0
- sip =6.6.2=py39h6e3512e_0
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- snowballstemmer =2.2.0=pyhd8ed1ab_0
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- tk =8.6.12=he1e0b03_0
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- wcwidth =0.2.5=pyh9f0ad1d_2
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- xarray =2022.9.0=pypi_0
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- zstd =1.5.2=hd705a24_1