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GitHub / bthoughton / polus-plugins

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/bthoughton%2Fpolus-plugins

Fork of PolusAI/polus-plugins
Stars: 0
Forks: 0
Open Issues: 0

License: mit
Language: Python
Repo Size: 162 MB
Dependencies: 290

Created: almost 3 years ago
Updated: about 1 year ago
Last pushed: about 1 year ago
Last synced: about 1 year ago

Files

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Readme

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Dependencies

transforms/images/polus-ftl-label-plugin/Cargo.toml cargo

criterion ^0.3 development
memmap2 0.3 development
ndarray-npy 0.8 development
ndarray 0.15
numpy 0.14
pyo3 0.14
rayon 1.0

clustering/K-NN/Shared-Memory-GPU/Dockerfile docker

ktaletsk/gpu bionic-20190612-cuda-10-2 build

clustering/K-NN/Shared-Memory-OpenMP/Dockerfile docker

ubuntu latest build

clustering/polus-feature-subsetting-plugin/Dockerfile docker

python 3.7-slim-buster build

clustering/polus-hdbscan-clustering-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

clustering/polus-k-means-clustering-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

clustering/polus-outlier-removal-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

dimension_reduction/UMAP/Shared-Memory-GPU/Dockerfile docker

nvidia/cuda 10.2-devel-ubuntu18.04 build

dimension_reduction/UMAP/Shared-Memory-OpenMP/Dockerfile docker

ubuntu latest build

features/polus-csv-statistics-plugin/Dockerfile docker

python 3.8-alpine build

features/polus-feature-extraction-plugin/Dockerfile docker

labshare/polus-bfio-util 2.0.4-slim-buster build

features/polus-imagenet-model-featurization-plugin/Dockerfile docker

tensorflow/tensorflow 2.4.1-gpu build

features/polus-object-spectral-featurization-plugin/Dockerfile docker

python 3.7-slim build

formats/polus-czi-extract-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

formats/polus-fcs-to-csv-converter-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

formats/polus-imaris-parser-plugin/Dockerfile docker

python 3.6-buster build

formats/polus-multichannel-tiff-plugin/Dockerfile docker

labshare/polus-bfio-util 1.3.6 build

formats/polus-ome-zarr-converter-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

formats/polus-tabular-to-feather-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

formats/polus-tiledtiff-converter-plugin/Dockerfile docker

maven 3-jdk-8 build
openjdk 8-alpine build

regression/polus-basic-flatfield-correction-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

regression/polus-bleed-through-estimation-plugin/Dockerfile docker

python 3.9-slim-buster build

segmentation/polus-aics-classic-seg-plugin/Dockerfile docker

labshare/polus-bfio-util 1.3.6-slim-buster build

segmentation/polus-cell-nuclei-segmentation/Dockerfile docker

labshare/polus-bfio-util 1.0.7-slim-buster build

segmentation/polus-imagej-threshold-apply-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-huang-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-ij1-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-intermodes-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-isodata-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-li-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-maxentropy-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-maxlikelihood-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-mean-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-minerror-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-minimum-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-moments-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-otsu-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-percentile-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-renyientropy-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-rosin-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-imagej-threshold-shanbhag-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

segmentation/polus-zo1-segmentation-plugin/Dockerfile docker

labshare/polus-bfio-util 1.3.3-tensorflow build

transforms/images/polus-apply-flatfield-plugin/Dockerfile docker

python 3.9-slim build

transforms/images/polus-autocropping-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

transforms/images/polus-binary-operations-plugin/Dockerfile docker

labshare/polus-bfio-util 1.0.10-slim-buster build

transforms/images/polus-ftl-label-plugin/Dockerfile docker

python 3.9 build
python 3.9-slim build

transforms/images/polus-image-assembler-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

transforms/images/polus-image-registration-plugin/Dockerfile docker

labshare/polus-bfio-util 2.4.2-slim-buster build

transforms/images/polus-imagej-deconvolve-richardsonlucy-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-filter-addpoissonnoise-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-filter-correlate-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-filter-dog-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-filter-frangivesselness-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-filter-gauss-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-filter-partialderivative-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-filter-sobel-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-filter-tubeness-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-imagej-image-integral-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

transforms/images/polus-intensity-projection-plugin/Dockerfile docker

labshare/polus-bfio-util 2.0.5-slim-buster build

transforms/images/polus-montage-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.8 build

transforms/images/polus-rolling-ball-plugin/Dockerfile docker

python 3.9-slim build

transforms/images/polus-stack-z-slice-plugin/Dockerfile docker

labshare/polus-bfio-util 2.0.5-slim-buster build

transforms/polus-recycle-vector-plugin/Dockerfile docker

python 3.9-alpine build

transforms/tabular/polus-csv-merger-plugin/Dockerfile docker

python 3.7-alpine build

transforms/tabular/polus-generalized-linear-model-plugin/Dockerfile docker

r-base 4.0.3 build

utils/filepattern-generator-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

utils/polus-csv-collection-merger/Dockerfile docker

alpine latest build

utils/polus-generic-to-image-collection-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.8 build

utils/polus-imagej-util/{{cookiecutter.project_slug}}/Dockerfile docker

labshare/polus-bfio-util 2.1.9-imagej build

utils/polus-notebook-plugin/Dockerfile docker

labshare/polyglot-notebook 0.3.2 build

utils/polus-python-template/{{cookiecutter.project_slug}}/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

utils/polus-stitching-vector-merger-plugin/Dockerfile docker

python 3.6-alpine build

utils/polus-subset-data-plugin/Dockerfile docker

python 3.7-alpine build

visualization/polus-color-pyramid-builder-plugin/Dockerfile docker

labshare/polus-bfio-util 2.4.4-slim-buster build

visualization/polus-feature-heatmap-pyramid-plugin/Dockerfile docker

labshare/polus-bfio-util 1.3.6 build

visualization/polus-graph-pyramid-builder-plugin/Dockerfile docker

python 3.7-slim build

visualization/polus-image-cluster-annotation-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.8 build

visualization/polus-precompute-slide-plugin/Dockerfile docker

labshare/polus-bfio-util 2.1.9 build

visualization/polus-precompute-volume-plugin/Dockerfile docker

python 3.8 build
python 3.8-slim build

formats/polus-tiledtiff-converter-plugin/pom.xml maven

package.json npm

@commitlint/cli ^8.2.0 development
@commitlint/config-conventional ^8.2.0 development
husky ^3.0.8 development

clustering/polus-feature-subsetting-plugin/src/requirements.txt pypi

filepattern ==1.4.5
pandas ==1.1.3

clustering/polus-hdbscan-clustering-plugin/src/requirements.txt pypi

hdbscan ==0.8.27
pandas ==1.2.4

clustering/polus-k-means-clustering-plugin/src/requirements.txt pypi

scikit-learn ==0.24.1

clustering/polus-outlier-removal-plugin/src/requirements.txt pypi

pandas ==1.2.3
pyod ==0.8.7
scikit-learn ==0.24.1

features/polus-feature-extraction-plugin/src/requirements.txt pypi

filepattern ==1.4.4
opencv-contrib-python-headless ==4.4.0.46
pandas ==1.2.2
scikit-image ==0.18.1
scipy ==1.6.0

features/polus-imagenet-model-featurization-plugin/src/requirements.txt pypi

bfio >=2.0.0
numpy ==1.19.2
pandas ==1.1.4
scikit-image ==0.17.2
tensorflow ==2.4.1
tqdm ==4.52.0

features/polus-object-spectral-featurization-plugin/src/requirements.txt pypi

bfio ==2.1.6
numpy ==1.20.1
open3d ==0.9.0
pandas ==1.1.4
scikit-image ==0.17.2
scipy ==1.3.3
trimesh ==3.8.19

formats/polus-czi-extract-plugin/src/requirements.txt pypi

bfio ==2.1.9
czifile ==2019.7.2
preadator ==0.2.0

formats/polus-fcs-to-csv-converter-plugin/src/requirements.txt pypi

fcsparser ==0.2.1

formats/polus-imaris-parser-plugin/src/requirements.txt pypi

XlsxWriter ==1.1.8
h5py ==2.9.0
numpy ==1.16.2
pandas ==0.24.2

formats/polus-multichannel-tiff-plugin/src/requirements.txt pypi

filepattern ==1.2.4
numpy ==1.18.1

formats/polus-ome-zarr-converter-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7
preadator ==0.2.0

formats/polus-tabular-to-feather-plugin/src/requirements.txt pypi

blake3 ==0.2.1
fcsparser ==0.2.2
filepattern ==1.4.7
vaex ==4.7.0

formats/polus-vector-converter-plugins/src/requirements-test.txt pypi

cellpose ==0.6.5 test

formats/polus-vector-converter-plugins/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7
numba ==0.53.1
numpy ==1.21.1
scipy ==1.7.1
zarr ==2.8.3

regression/polus-basic-flatfield-correction-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7
opencv-python-headless ==4.5.1.48
preadator ==0.2.0

regression/polus-bleed-through-estimation-plugin/requirements-bench.txt pypi

matplotlit ==3.5.1
seaborn ==0.11.2

regression/polus-bleed-through-estimation-plugin/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7
numpy ==1.22.1
scikit-learn ==1.0.2
scipy ==1.7.3

segmentation/polus-aics-classic-seg-plugin/src/requirements.txt pypi

numpy ==1.18.1
opencv_python_headless ==4.3.0.38

segmentation/polus-cell-nuclei-segmentation/src/requirements.txt pypi

Keras ==2.3.1
opencv_python_headless ==4.1.2.30
tensorflow_cpu ==2.1.0

segmentation/polus-imagej-threshold-apply-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-huang-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-ij1-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-intermodes-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-isodata-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-li-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-maxentropy-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-maxlikelihood-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-mean-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-minerror-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-minimum-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-moments-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-otsu-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-percentile-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-renyientropy-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-rosin-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

segmentation/polus-imagej-threshold-shanbhag-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-apply-flatfield-plugin/src/requirements.txt pypi

bfio ==2.1.5
filepattern ==1.4.6
preadator ==0.2.0

transforms/images/polus-autocropping-plugin/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7
scipy ==1.7.1

transforms/images/polus-binary-operations-plugin/src/requirements.txt pypi

bfio ==1.3.6
javabridge ==1.0.18
numpy ==1.18.1
opencv_python ==4.3.0.36
python_bioformats ==1.5.2
scipy ==1.4.1

transforms/images/polus-ftl-label-plugin/rust_requirements.txt pypi

setuptools-rust ==0.12.1

transforms/images/polus-ftl-label-plugin/src/requirements.txt pypi

Cython ==3.0.0a9
bfio ==2.1.9
filepattern ==1.4.7
numpy ==1.21.4
preadator ==0.2.0

transforms/images/polus-image-assembler-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7
preadator ==0.2.0

transforms/images/polus-image-registration-plugin/src/requirements.txt pypi

filepattern ==1.2.4
numpy ==1.19.1
opencv_python_headless ==4.2.0.32

transforms/images/polus-imagej-deconvolve-richardsonlucy-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-filter-addpoissonnoise-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-filter-correlate-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-filter-dog-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-filter-frangivesselness-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-filter-gauss-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-filter-partialderivative-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-filter-sobel-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-filter-tubeness-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-imagej-image-integral-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

transforms/images/polus-intensity-projection-plugin/src/requirements.txt pypi

bfio ==2.0.5
preadator ==0.2.0

transforms/images/polus-montage-plugin/src/requirements.txt pypi

bfio ==2.1.8
filepattern ==1.4.6

transforms/images/polus-rolling-ball-plugin/src/requirements.txt pypi

bfio ==2.1.7
scikit-image ==0.18.1

transforms/images/polus-stack-z-slice-plugin/src/requirements.txt pypi

bfio ==2.0.5
filepattern ==1.4.4
preadator ==0.2.0

transforms/polus-recycle-vector-plugin/src/requirements.txt pypi

filepattern ==1.4.7

utils/filepattern-generator-plugin/src/requirements.txt pypi

filepattern ==1.4.7

utils/polus-generic-to-image-collection-plugin/src/requirements.txt pypi

bfio ==2.1.8
filepattern ==1.4.6

utils/polus-imagej-util/requirements.txt pypi

bfio ==2.1.9
black *
cookiecutter *
imglyb ==1.0.0
ipywidgets *
jpype1 ==1.2.1
kubernetes *
pyimagej ==1.0.0
scyjava ==1.1.0

utils/polus-imagej-util/{{cookiecutter.project_slug}}/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7

utils/polus-python-template/requirements.txt pypi

bfio ==2.1.9
cookiecutter ==1.7.2
filepattern ==1.4.6
jinja2_ospath ==0.3.0

utils/polus-python-template/{{cookiecutter.project_slug}}/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.6

utils/polus-subset-data-plugin/src/requirements.txt pypi

filepattern ==1.4.4

visualization/polus-color-pyramid-builder-plugin/src/requirements.txt pypi

filepattern ==1.2.4
imageio ==2.8.0

visualization/polus-feature-heatmap-pyramid-plugin/src/requirements.txt pypi

filepattern ==1.2.4

visualization/polus-graph-pyramid-builder-plugin/src/requirements.txt pypi

imageio ==2.5.0
matplotlib ==3.1.1
numpy ==1.21.0
pandas ==0.25.1

visualization/polus-image-cluster-annotation-plugin/src/requirements.txt pypi

bfio ==2.1.8
pandas ==1.2.2

visualization/polus-precompute-slide-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7
imageio ==2.8.0
preadator ==0.2.0

visualization/polus-precompute-volume-plugin/src/requirements.txt pypi

bfio ==2.1.9
filepattern ==1.4.7
numpy ==1.20.3
open3d ==0.13.0
scikit_image ==0.18.2
trimesh ==3.8.19
wheel ==0.36.2