pattonw

sarbor

A structure for combining a 3D arbor with a dense volumetric segmentation

rust-pyn5

Wrap rust-n5 functionality in a python importable library

funlib.show.neuroglancer

Scripts and helpers for the neuroglancer WebGL viewer.

op-n2v

out painting noise to void

segment_rs

rust implementations of funlib.segment cython code

mwatershed

A rusty mutex watershed

dacapo

gunpowder

A library to facilitate machine learning on multi-dimensional images.

funlib.geometry

A package for Coordinates, Rois and common operations in Coordinate spaces

funlib.learn.torch

secret-santa

Some scripts to create secret santa assignments

everything-will-be-fine

Semantic Segmentation DL@MBL-2023 team

tqdm

A Fast, Extensible Progress Bar for Python and CLI

zebrafish_experiments

scripts and configs for running zebrafish experiments

mwatershed_agglom

scripts for blockwise global agglomeration using mutex watershed

augment

Simple elastic augmentation for ND arrays

fibsem-tools

Tools for handling FIB-SEM data and annotations

daisy

Block-wise task scheduling for large nD volumes.

cnnectome.conversion

scripts and helper functions for converting trained tensorflow cnnectome models to pytorch

lsd

🌈

py-swc-parser

An swc parser for python.

napari-pssr

napari plugin for pssr

staged-recipes

A place to submit conda recipes before they become fully fledged conda-forge feedstocks

napari-affinities

model-specs

Some example model specs for use with napari plugins

yoshi_experiments

core-bioimage-io-python

Python libraries for loading, running and packaging bioimage.io models

spec-bioimage-io

Specification for the bioimage.io model description file.

contextnet

library and scripts for training models with arbitrarily large context

tracking