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madinajapakhova/README.md

Projects

HIV-SEIR

Final project submission for the course on Scientific Computing. Prof. Philipp Eisenhauer, Bonn University.

I showed application of numerical methods for parameter estimation in an HIV spread model.
Implementation of gradient descent, numerical integration, and Newton-Raphson method to estimate transmission probability and seroconversion.

Keywords: mathematical modeling of infectious diseases; biostatistics; epidemiology; parameter estimation; numerical methods; maximum likelihood estimation

Viral dynamics in monkey and bat cell lines

Team project. Contributors: C. Munegowda, M. Japakhova, S. Singhal, J. Bürger, C. E. Brook, L. Brusch.
Supervisor: Dr. Lutz Brusch

Reproduction of a published model in Morpheus. Morpheus is a software for modeling and simulation of multiscale and multicellular biological systems. To view our team project, please visit https://morpheus.gitlab.io/model/m7677/

Keywords: mathematical modeling; cellular automaton; simulation; immunity; interferon response

Pinned Loading

  1. HIV-SEIR HIV-SEIR Public

    WiSe 2021

    Jupyter Notebook

  2. Applied-Bioninformatics Applied-Bioninformatics Public

    R

  3. Pubmed_fetching Pubmed_fetching Public

    extracting literature records over extended time periods from Pubmed

    Jupyter Notebook

  4. NGS_pipeline NGS_pipeline Public

    Here we will provide our parallelized pipeline for processing NGS data. CURRENTLY UNDER DEVELOPMENT

    Shell