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@yigbt Computational Biology and Chemistry - UFZ, Leipzig, Germany

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    13 repositories

    • EcoToxFred

      Public
      EcoToxFred, a Neo4j-backed Chatbot with whom you can discuss environmental monitoring data collected in a large knowledge graph and stored in a Neo4j Graph Database. EcoToxFred is a prototype that demonstrates how domain-specific knowledge can be combined with LLMs to facilitate the interaction between users and (domain-specific) knowledge.
      Python
      •1•1•6•0•Updated Jan 14, 2025Jan 14, 2025

    • multiGSEA

      Public
      The `multiGSEA` R package was designed to run a robust GSEA-based pathway enrichment for multiple omics layers.
      R
      •
      Other
      •6•17•1•0•Updated Jan 6, 2025Jan 6, 2025

    • deepFPlearn

      Public
      Link molecular structures of chemicals (in form of topological fingerprints) with multiple targets
      Python
      •
      Other
      •7•9•9•9•Updated Dec 19, 2024Dec 19, 2024

    • ChemSimTorch

      Public
      ChemSimTorch is a Python package for efficient computation of chemical similarity using PyTorch tensors, enabling fast and scalable matrix calculations. It currently supports Tanimoto similarity and bond energy difference, with planned additions like Johnson similarity and Rapid Similarity Calculation.
      GNU General Public License v3.0
      •0•0•0•0•Updated Nov 26, 2024Nov 26, 2024

    • uap

      Public
      Universal Analysis Pipeline - A python tool for controlled and coordinated data analysis
      Python
      •12•3•3•2•Updated Nov 3, 2022Nov 3, 2022

    • MIRfix

      Public
      The MIRfix pipeline
      Python
      •
      GNU General Public License v3.0
      •5•0•0•0•Updated Jun 22, 2021Jun 22, 2021

    • metaboliteIDmapping

      Public
      R
      •
      Other
      •1•1•0•1•Updated May 10, 2021May 10, 2021

    • scImpNetworks

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Mar 19, 2021Mar 19, 2021

    • MOD-Finder

      Public
      MOD-Finder (Multi-Omics Data set Finder) is an easy-to-use tool to efficiently search for compound-related omics data sets.
      R
      •0•0•1•0•Updated Jun 25, 2019Jun 25, 2019

    • archive

      Public
      create an archive and verify its contents
      Shell
      •
      BSD 3-Clause "New" or "Revised" License
      •2•0•0•0•Updated Apr 25, 2019Apr 25, 2019

    • conda_envs

      Public
      Conda environments used in our group
      GNU General Public License v3.0
      •0•0•0•0•Updated Dec 19, 2018Dec 19, 2018

    • uap-docker

      Public
      Files required to build a uap Docker container for testing purposes.
      Makefile
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Dec 7, 2018Dec 7, 2018

    • ePoPE

      Public
      Efficient Prediction of Paralog Evolution
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 29, 2018Oct 29, 2018