paulflang Goto Github PK
Name: Paul Lang
Type: User
Company: Biosim
Bio: Systems Biology | QSP | Cell Cycle
Twitter: PF_Lang
Paul Lang's Projects
2020-software-engineering-ci
2020-software-engineering-day1
Day 1 course content for the SABS-R3 module: Software Engineering, 2020
2020-software-engineering-day2
Day 2 course content for the SABS-R3 module: Software Engineering, 2020
2020-software-engineering-day3
Day 3 course content for the SABS-R3 module: Software Engineering, 2020
2020-software-engineering-day4
Day 4 course content for the SABS-R3 module: Software Engineering, 2020
2020-software-engineering-day6
testing and continuous integration
amici
Advanced Multilanguage Interface to CVODES and IDAS
benchmark-models-petab
A collection of mathematical models with experimental data in the PEtab format as benchmark problems in order to evaluate new and existing methodologies for data-based modelling
cell_cycle_model
cell_cycle_petab
cell_cycle_time_course
circulatorysystemmodels.jl
colprac
Contributor's Guide on Collaborative Practices for Community Packages
mathml.jl
Julia MathML parser
modelingtoolkit.jl
An acausal modeling framework for automatically parallelized scientific machine learning (SciML) in Julia. A computer algebra system for integrated symbolics for physics-informed machine learning and automated transformations of differential equations
oxthesis_template
LaTeX template for an Oxford University thesis
petab
PEtab - an SBML and TSV based data format for parameter estimation problems in systems biology
petab_nlme_extension
phate
PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.
pypesto
python Parameter EStimation TOolbox
sbml.jl
Julia interface to the Systems Biology Markup Language (SBML) library
sbml2julia
A tool to for optimizing parameters of ordinary differential equation (ODE) models. SBML2Julia translates a model from SBML/PEtab format into Julia for Mathematical Programming (JuMP), performs the optimization task and returns the results.
sbmlbiomodelsrepository.jl
sbmlgist
sbmlinterface.jl
Interface between the Systems Biology Markup Language and Julia
sbmltoodepy
A tool for creating Python implementations of SBML models.
scimlbenchmarks.jl
Scientific machine learning (SciML) benchmarks, AI for science, and (differential) equation solvers. Covers Julia, Python (PyTorch, Jax), MATLAB, R
scimldocs
sysbio-glossary
A glossary of computational systems biology concepts I encountered during my doctoral research.
testci
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