Extends miniwdl to run workflows on AWS Batch & EFS

WDL launcher for AWS HealthOmics

scripts and API for running Deep Learning models from segmenter

Scalable reporting of Cromwell task call resource monitoring data to BigQuery

A fully scalable robust image feature extraction library.

Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications

StarDist - Object Detection with Star-convex Shapes

InMoose is the INtegrated Multi Omic Open Source Environment. It is a collection of tools for the analysis of omic data.

OpenMMLab Semantic Segmentation Toolbox and Benchmark.

simple package for augmentation of n-dimensional arrays

Google Drive API Python wrapper library. Maintained fork of PyDrive.

Pytorch implementation for the manuscript "General stain deconvolution of histopathology images with physics-guided deep learning"

Tabular seff

Variable Inspector extension for Jupyterlab

python and jupyter scripts, widgets and utilities for interacting with omero

A module with convenience functions for writing Python code that interacts with OMERO.

Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data processing and analysis.

Notebooks for HuBMAP tutorial session (January 2023)

A blocking, shuffling and loss-less compression library that can be faster than `memcpy()`.

A package which efficiently applies any function to a pandas dataframe or series in the fastest available manner

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

Specification for the Workflow Description Language (WDL).