Abe404

root_painter

RootPainter: Deep Learning Segmentation of Biological Images with Corrective Annotation

RootPainter3D

RootPainter3D: Interactive-machine-learning enables rapid and accurate contouring for radiotherapy

segmentation_of_roots_in_soil_with_unet

Code for the paper "Segmentation of Roots in Soil with U-Net"

mask_to_dicom_rtstruct

Convert numpy mask to dicom rtstruct

dicom_mask

convert dicom to numpy

cementjs

learn_c

second attempt at doing learn c the hard way

localise_to_segment

Localise to segment: crop to improve organ at risk segmentation accuracy

pytorch-gconv-experiments

Experiments with Group Equivariant Convolutions in PyTorch

Pytorch-UNet

Pytorch implementation of the U-Net for image semantic segmentation, with dense CRF post-processing

rp_annot

Sparse binary data compression

abe404.github.io

awesome-data-labeling

A curated list of awesome data labeling tools

batchgenerators

A framework for data augmentation for 2D and 3D image classification and segmentation

create_image_tiles

DART

scripts to work with evaluation of dose summation reproducibility

dicom_outliner

Create a HU 3000 outline in a dicom scan using a specified structure

Dicom_RT_and_Images_to_Mask

Various utilities created to help with the interpretation of dicom images/RT Structures

fastai

The fastai deep learning library, plus lessons and tutorials

im_mask

mask an image

keras

Deep Learning for humans

node-mocks-http

Mock 'http' objects for testing Express routing functions

PROSTATEx_masks

Lesion and prostate masks for the PROSTATEx training dataset, after a lesion-by-lesion quality check.

segment-anything

The repository provides code for running inference with the SegmentAnything Model (SAM), links for downloading the trained model checkpoints, and example notebooks that show how to use the model.

seminal_root_angle

task_timer

Time tasks and save data to a CSV.

tensorflow

Computation using data flow graphs for scalable machine learning

texfig

Utility to generate PGF vector files from Python's Matplotlib plots to use in LaTeX documents.

tplx-ds

a repo for a recruitment task