omics

Multi-source Translation

Visual self-service analytics platform for big omics data.

Development repository for the Bioconductor package 'mixOmics '

compositional data analysis toolbox

Prize-Collecting Steiner Forests for Interactomes

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

Visualizing and Analyzing Metabolic Networks with Reaction Pattern Recognition

R package for High dimensional data analysis and integration with O2PLS!

Framework for efficient high-dimensional association analyses.

Open-Source Software for Omic Data Analysis and Visualization

Analyses for "State of the field in multi-omics research: from computational needs to data mining and sharing"

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

A visualization tool for Systems-Level Interactive Data Exploration

The Tomographer package implements the mathematical spatial image reconstruction of any set of read counts as described in the following article: https://www.nature.com/articles/s41587-021-00879-7

An R package to plot interactive three-way differential expression analysis

An application to find and visualize circadian rhythms in time course data using extended harmonic oscillators.

OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic tool development from high-throughput high-throughput omics experiments and other multidimensional datasets. Initially developed for miRNA-seq, RNA-seq and qPCR.

Nature Medicine paper. A Multidimensional Precision Medicine Approach for Autism Subtype Identification.

Manage life sciences data using R and b-fabric - a WSDL/REST interface and a tool box; main focus on MS data

BioMM: Biological-informed Multi-stage Machine learning framework for phenotype prediction using omics data

A python package for standardized and reproducible processing, analysis, and integration of clinical proteomics data

Patient 'omics data in OMOP format

Enzyme-constrained genome-scale models in python

Correlated Trait Locus (CTL) mapping

Backbone of Drug Targetor: a js web app for GWAS-based drug-target networks

Signaling Pathway Reconstruction Analysis Streamliner (SPRAS)

The deconvR is an R package designed for analyzing deconvolution of the bulk sample(s) using an atlas of reference omic signature profiles and a user-selected model.

Comparative Metatranscriptomics Workflow