Skip to content
View dweindl's full-sized avatar
22 followers · 50 following

Achievements

Achievement: QuickdrawAchievement: Pair Extraordinairex4Achievement: YOLOAchievement: Pull Sharkx4Achievement: StarstruckAchievement: Arctic Code Vault Contributor

Achievements

Achievement: QuickdrawAchievement: Pair Extraordinairex4Achievement: YOLOAchievement: Pull Sharkx4Achievement: StarstruckAchievement: Arctic Code Vault Contributor

Highlights

  • Pro

Organizations

@ICB-DCM @Benchmarking-Initiative @PeriNAA @PEtab-dev @AMICI-dev @biosimulators

Block or report dweindl

Block user

Prevent this user from interacting with your repositories and sending you notifications. Learn more about blocking users.

You must be logged in to block users.

Please don't include any personal information such as legal names or email addresses. Maximum 100 characters, markdown supported. This note will be visible to only you.
Report abuse

Contact GitHub support about this user’s behavior. Learn more about reporting abuse.

Report abuse
dweindl/README.md

About me

Hi 👋, I'm Daniel, a Computational Biologist at the Interdisciplinary Research Unit Mathematics and Life Sciences / Life & Medical Sciences Institute at the University of Bonn. I am mostly active in dynamical modeling and parameter estimation. My papers are listed on Google Scholar.

I am developer / regular contributor / maintainer of a number of tools around efficient simulation and parameter estimation for dynamic models in systems biology. The main projects are:

  • PEtab for specifying parameter estimation problems in systems biology in an efficient and interoperable manner
  • AMICI for scalable simulation and sensitivity analysis (Python / C++ (/ Matlab))
  • pypesto for parameter estimation in Python
  • parPE for parameter estimation for ordinary differential equation models on high-performance computing cluster (C++)

Other projects in rather early stage:

📫 How to reach me

Some stats

Pinned Loading

  1. AMICI-dev/AMICI AMICI-dev/AMICI Public

    Advanced Multilanguage Interface to CVODES and IDAS

    Jupyter Notebook 109 31

  2. ICB-DCM/pyPESTO ICB-DCM/pyPESTO Public

    python Parameter EStimation TOolbox

    Python 219 47

  3. PEtab-dev/PEtab PEtab-dev/PEtab Public

    PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology

    60 12

  4. ICB-DCM/parPE ICB-DCM/parPE Public

    Parameter estimation for dynamical models using high-performance computing, batch and mini-batch optimizers, and dynamic load balancing.

    C++ 19 4

  5. mia mia Public

    Mass isotopolome analyzer - GUI-based non-targeted analysis of stable isotope labeling mass spectrometry data

    C++ 4 1

  6. sbmlmath sbmlmath Public

    SBML MathML <-> SymPy

    Python 8