Ursgal - universal Python module combining common bottom-up proteomics tools for large-scale analysis

🧪 🖥 Transparent exploration of machine learning for biomarker discovery from proteomics and omics data

scDataset: Scalable Data Loading for Deep Learning on Large-Scale Single-Cell Omics

Enzyme-constrained genome-scale models in python

A python package to explore pathways, diseases and drugs associated to a list of targets (genes, proteins, etc)

Signaling Pathway Reconstruction Analysis Streamliner (SPRAS)

Framework for efficient high-dimensional association analyses.

PyIOmica (pyiomica) is a Python package for omics analyses.

A spatially explicit trait- and individual-based microbial systems modelling framework

🎇 Scale interactive spatial omics in the browser to thousands of images | https://rakaia.io/

A repository for hosting Nextflow DSL2 module files containing tool-specific process definitions and their associated documentation for MSKCC

Comparative Metatranscriptomics Workflow

A simple python package for doublet detection in scRNA-seq data

A simple python package for doublet detection in scRNA-seq data. This repo is read-only, please visit GCS-ZHN/socube to submit issue and PR.

a python library providing data processing and machine learning tools for computational omics, with emphasis on explainability

Utils for loading HuBMAP data formats

OMD Curation Toolkit is a python package designed for the download and curation of metadata and fastq files of public omics datasets.

FUNctional analysis worKflows Interface

Python package for creating interactive and static visualizations of multi-omics data

Reusable in-situ sequencing analysis workflow orchestrated by Nextflow