Pinned Repositories
AgrifieldNet
My messy attempt at the AgriFieldNet India Challenge (https://zindi.africa/competitions/agrifieldnet-india-challenge). Crop classification with Transformers
am_utils
Some useful functions
awesome-climate-change
A collection of awesome resources about climate change.
CS-Net
CS-Net (MICCAI 2019) and CS2-Net (MedIA 2020)
CS-Sim
Synthetic images with curvilinear structures; 2D and 3D.
CSNet
Re-implementation of the original CS-Net (https://github.com/iMED-Lab/CS-Net) using MONAI (https://github.com/Project-MONAI/MONAI).
filament_annotator_3D
Annotation of filament / curvilinear structures in 3D based on napari viewer
napari-filament-annotator
Annotation of filaments and other curvilinear structures in 3D.
pretty-print-confusion-matrix
plot a pretty confusion matrix with seaborn and matplotlib in python
trace-net
amedyukhina's Repositories
amedyukhina/napari-filament-annotator
Annotation of filaments and other curvilinear structures in 3D.
amedyukhina/CS-Sim
Synthetic images with curvilinear structures; 2D and 3D.
amedyukhina/awesome-climate-change
A collection of awesome resources about climate change.
amedyukhina/AgrifieldNet
My messy attempt at the AgriFieldNet India Challenge (https://zindi.africa/competitions/agrifieldnet-india-challenge). Crop classification with Transformers
amedyukhina/am_utils
Some useful functions
amedyukhina/CS-Net
CS-Net (MICCAI 2019) and CS2-Net (MedIA 2020)
amedyukhina/CSNet
Re-implementation of the original CS-Net (https://github.com/iMED-Lab/CS-Net) using MONAI (https://github.com/Project-MONAI/MONAI).
amedyukhina/filament_annotator_3D
Annotation of filament / curvilinear structures in 3D based on napari viewer
amedyukhina/pretty-print-confusion-matrix
plot a pretty confusion matrix with seaborn and matplotlib in python
amedyukhina/biomassters
The BioMassters challenge (https://www.drivendata.org/competitions/99/biomass-estimation/page/534/)
amedyukhina/trace-net
amedyukhina/care_batch
Batch restoration with CARE
amedyukhina/cellfinder
Automated 3D cell detection and registration of whole-brain images
amedyukhina/COSMOS-CARE
COSMOS recipe for CARE
amedyukhina/DeconvTest
A python-based simulation framework that allows the user to quantify and compare the performance of different deconvolution methods.
amedyukhina/deconvtest2
Optimized version of DeconvTest: framework to quantify and compare the performance of image restoration methods
amedyukhina/HelperLib
Helper functions for working with files and parallel processing
amedyukhina/images_for_cellpose_issue
test images for cellpose issue: https://github.com/MouseLand/cellpose/issues/225
amedyukhina/intake_io
Image-focused IO for Python using intake and xarray
amedyukhina/ml_utils
code for object detection training
amedyukhina/naparimovie
Create movies from series of key-frames in napari.